PEPTIDE VACCINE THERAPY FOR TREATMENT OF FRa-EXPRESSING TUMORS

ABSTRACT

Provided are methods for inducing and maintaining protective immunity against a tumor expressing FRα in a subject, comprising the administration of one or more peptide vaccines according to a particular dosages or particular dosage regimens.

REFERENCE TO RELATED APPLICATIONS

This application is a continuation of U.S. patent application Ser. No. 15/989,464 (filed May 25, 2018), which is a continuation of U.S. Pat. No. 9,993,538 (filed May 31, 2016, issued Jun. 12, 2018), which claims priority to United States Provisional Application Nos. 62/168,367 (filed May 29, 2015), 62/251,975 (filed Nov. 6, 2015) and 62/288,757 (filed Jan. 29, 2016), each of which are hereby incorporated by reference in their entirety.

SEQUENCE LISTING

The instant application contains a Sequence Listing which has been submitted in ASCII format via EFS-Web and is hereby incorporated by reference in its entirety. Said ASCII copy, created on Nov. 23, 2020, is named RXJ-021CN2_Sequence_Listing.txt and is 4,605 bytes in size.

FIELD OF THE INVENTION

The present invention is directed to the use of peptide based cancer vaccines.

BACKGROUND OF THE INVENTION

Folate receptor α (FRα), also known as folate binding protein (FBP), LK26 trophoblastic antigen and GP38, is a membrane-bound glycosylphosphatidyl-inositol-linked protein responsible for some folate transport in the various epithelial tissues, the choroid plexus, the retina and the placenta (Weitman et al., Cancer Res 1992; 52:3396-401; Chancy et al., J Biol Chem 2000; 275:20676-84; Solanky et al., Placenta 2010; 31:134-43). Under normal conditions, the FRα isoform is found at low levels in the apical (luminal) cell membrane of various epithelial tissues or located behind the blood-brain or blood-retinal barriers.

In contrast, a large number of primarily epithelial-derived malignancies have been found to highly express FRα. Greater than 90% of epithelial ovarian cancers; 20-50% of breast, colorectal and lung carcinomas (e.g., NSCLC), as well as cervical cancer (Pillae et al., J. Clin. Pathol. 56:569-574, 2003), uterine carcinomas, osteosarcomas, renal cell carcinomas, mesothelioma, CNS sarcomas, ependyomas and pituitary adenomas demonstrate increased expression levels of FRα by IHC, immunoblot or rt-PCR (reviewed by Clifton et al., Human Vaccines 2011; 7(2):183-190).

Further characterization of FRα has revealed that it is functionally important in cancer pathogenesis. Increased expression of FRα in malignancy is associated with increased uptake of folate, a necessary micronutrient for rapidly replicating cells (Antony, Blood 1992; 79:2807-20). Gene transfection of FRα into malignant cell lines causes faster replication (Bottero et al., Cancer Res 1993; 53:5791-6). This has been confirmed on pathogenic analysis of ovarian cancers where FRα overexpression is associated with higher grade, stage and percentage of cells in S-phase (Toffoli et al., Int J Cancer 1997; 74:193-8).

FRα overexpression in ovarian cancer has also been linked to failure to respond to platinum-based chemotherapy and shorter survival in patients with residual disease after primary surgery (Toffoli et al., Int J Cancer 1998; 79:121-6). Similarly, FRα overexpression has been implicated in resistance of melanoma cell lines to methotrexate and colon cancer cell lines to 5-fluorouracil (Sanchez-del-Campo et al., Pigment Cell Melanoma Res 2009; 22:588-600; Liu et al., J Org Chem 2001; 66:5655-63). FRα overexpression is also associated with a worse prognosis in other malignancies, specifically, an increased risk of recurrence (HR: 2.8; 95% CI 1.4-5.6) in breast cancer (Hartmann et al., Int J Cancer 2007; 121:938-42), and a shorter progression-free survival (HR 2.14; 95% CI 1.07-4.28) in uterine adenocarcinoma (Allard et al., Gynecol Oncol 2007; 107:52-7).

The relatively low levels of FRα expression in normal tissue and, often marked overexpression in some malignant tissue make it an attractive target for immunotherapy. Efforts to stimulate passive immunity against FRα-expressing cancer include the use of murine, chimeric and humanized monoclonal antibodies (e.g., farletuzumab), alone or in conjugates to deliver radionuclides, FRα-targeted T cells and stimulatory cytokines to malignant tissues. Additionally, T cell infusion with genetically modified autologous T cells has been used. Active immunotherapy methods for FRα-expressing cancers currently being investigated include the use of folate-localized molecules to enhance cancer immunogenicity, techniques to raise FRα-specific immunity via viral vector, as well as multiple vaccine strategies to include modified whole tumor cells, as well as DNA, dendritic cell and peptide vaccines (reviewed for example by Clifton et al., Human Vaccines 7:183-190, 2011).

Peptide-based vaccines use immunogenic peptides identified from tumor associated antigens. Previous studies have shown that FRα contains naturally processed immunogenic peptides that are recognized by tumor-associated lymphocytes, and that two specific FRα-derived immunogenic peptides, E39 (FRα 191-199) and E41 (FRα 245-253), are capable of enhancing tumor-associated lymphocyte (TAL) proliferation and anti-tumor function (Peoples et al., Ann Surg Oncol 1998; 5:743-50). TALs stimulated with these peptides are capable of recognizing and lysing FRα-expressing tumor cells of various tissue origins (Peoples et al., Clin Cancer Res 1999; 5:4214-23). Furthermore, FRα-antigen reactive lymphocytes have been identified in patients with breast and ovarian cancer and, to a lesser degree, in some healthy individuals (Knutson et al., J Clin Oncol 2006; 24:4254-61; Lee et al., Oncol Rep 2000; 7:455-66; Kim et al., Anticancer Res 1999; 19:2907-16).

U.S. Pat. Nos. 7,547,759, 8,258,261 and 8,815,256 disclose compositions and methods for inducing immunity against a cancer expressing FRα using immunogenic peptides. One of the peptides, E39, has been studied in human clinical trials. E39 was included with four other major histocompatibility (MHC) class I and one MHC class II peptides along with immunoadjuvant in a phase I trial enrolling patients with ovarian and fallopian tube carcinomas. Of the five HLA-A2 patients who received the E39 peptide, two (40%) developed a functional T cell response by ELISpot (Chianese-Bullock et al., J Immunother 2008; 31:420-30).

Despite the myriad of approaches being investigated, durability of response remains limited and it is not clear which, if any, active and passive immunotherapies will ultimately be clinically effective. Accordingly, there is still a continuing need for compositions and methods which deliver an immunoprotective and therapeutic effect for the treatment for FRα-expressing epithelial-derived malignancies.

SUMMARY OF THE INVENTION

Provided is a method for inducing and maintaining protective immunity against a tumor expressing FRα in a subject, comprising sequentially administering to the subject a first peptide vaccine comprising the immunogenic peptide, E39, and a second peptide vaccine comprising a variant of the E39 peptide according to a particular clinical dosage regimen.

Accordingly, in one aspect, a method of inducing an immune response to a tumor expressing folate receptor alpha (FRα) is provided which includes the steps of: (a) administering a first vaccine comprising a peptide comprising the amino acid sequence of SEQ ID NO:1 (E39) and an adjuvant every three to four weeks for a period of about two to about six months; and (b) subsequently administering a second vaccine comprising a peptide comprising the amino acid sequence of SEQ ID NO: 2 (E39′) and an adjuvant every three to four weeks for a period of about two to six months.

In some embodiments, the method results in one of more of the following: (i) a decrease in the number FRα-expressing tumor cells; (ii) inhibition of FRα expressing tumor growth; (iii) inhibition of FRα expressing tumor cell infiltration into peripheral organs; (iv) inhibition of FRα expressing tumor metastasis; (v) prevention or delay of FRα expressing tumor recurrence; and (vi) an increase in progression free survival (PFS). In one embodiment, the method reduces the risk of cancer recurrence in a subject who is in clinical remission from a tumor expressing folate receptor alpha (FRα).

In some embodiments, the first vaccine is administered every three to four weeks for a period of about three months. In other embodiments, the first vaccine is administered every three to four weeks for a period of about four months. In other embodiments, the first vaccine is administered every three to four weeks for a period of about five months. In other embodiments, the first vaccine is administered every three to four weeks for a period of about six months.

In some embodiments, the second vaccine is administered every three to four weeks for a period of about three months. In other embodiments, the second vaccine is administered every three to four weeks for a period of about four months. In other embodiments, the second vaccine is administered every three to four weeks for a period of about five months. In other embodiments, the second vaccine is administered every three to four weeks for a period of about six months.

In one embodiment, the first vaccine is administered every three to four weeks for a period of about three months, and the second vaccine is subsequently administered every three to four weeks for a period of about three months.

In some embodiments, the first vaccine is administered by injection. In other embodiments, the second vaccine is administered by injection. In other embodiments, both the first vaccine and the second vaccine are administered by injection. In related embodiments, the first and/or second vaccine is administered by intradermal injection.

In some embodiments, the first vaccine is administered as split dosages that are administered substantially concurrently. In other embodiments, the second vaccine is administered as split dosages that are administered substantially concurrently. In other embodiments, both the first and second vaccines are administered as split dosages. In related embodiments, the split dosages are administered at one site or at different sites. In other related embodiments, the split dosages are administered at least 5 cm apart.

In some embodiments, the first vaccine comprises a peptide consisting of the amino acid sequence of SEQ ID NO: 1. In other embodiments, the second vaccine comprises a peptide consisting of the amino acid sequence of SEQ ID NO: 2. In other embodiments, the first vaccine comprises a peptide consisting of the amino acid sequence of SEQ ID NO: 1, and the second vaccine comprises a peptide consisting of the amino acid sequence of SEQ ID NO: 2.

In some embodiments, each vaccine administered at a dosage of about 0.1 mg to about 2 mg of the peptide. In other embodiments, the dosage of the first vaccine is about 0.5 mg to about 1.0 mg of the peptide. In other embodiments, the dosage of the first vaccine is about 1.0 mg of the peptide. In other embodiments, the second vaccine comprises about 0.5 mg to about 1.0 mg of the peptide.

In still other embodiments, the adjuvant in the first vaccine and/or second vaccine is granulocyte macrophage-colony stimulating factor (GM-CSF). In some embodiments, GM-CSF is present in the vaccine in an amount between about 0.01 to about 0.5 mg GM-CSF. In other embodiments, one or both vaccines comprise about 0.250 mg GM-CSF.

In a related aspect, methods of maintaining or sustaining an immune response to a tumor expressing FRα are provided which include the steps of (a) administering a first vaccine comprising a peptide comprising the amino acid sequence of SEQ ID NO:1 (E39) and an adjuvant every three to four weeks for a period of about two to about six months; (b) subsequently administering a second vaccine comprising a peptide comprising the amino acid sequence of SEQ ID NO: 2 (E39′) and an adjuvant every three to four weeks for a period of about two to six months; and (c) administering a booster composition comprising an effective amount of a peptide comprising an amino acid selected from the group consisting of SEQ ID NO: 1 and SEQ ID NO: 2, and an adjuvant. In one embodiment, the booster composition comprises a peptide consisting of the amino acid sequence of SEQ ID NO: 1. In one embodiment, the booster composition comprises an peptide consisting of the amino acid sequence of SEQ ID NO: 2.

In some embodiments, the booster composition is administered about six months, about twelve months or about one year after completion of the primary immunization schedule. In some embodiments, the booster composition comprises about 0.1 mg to about 2 mg of the peptide. In other embodiments, the booster composition comprises about 0.5 to about 1.0 mg of the peptide. In some embodiments, the adjuvant in the booster composition is GM-CSF in an amount between about 0.01 mg to about 0.5 mg GM-CSF. In one embodiment, the booster composition comprises about 0.250 GM-CSF.

In one embodiment of these aspects of the methods provided herein, the FRα-expressing cancer is an epithelial-derived malignancy. In some embodiments, the FRα-expressing cancer has an immunohistochemistry (IHC) rating of at least 1+ for FRα protein expression. In some embodiments, the FRα-expressing cancer is selected from the group consisting of ovarian cancer, endometrial cancer, breast cancer, cervical cancer, colorectal cancer, lung cancer, uterine cancer, osteosarcoma, renal cell carcinoma, mesothelioma, CNS sarcoma, ependyoma and pituitary adenoma. In one embodiment, the FRα-expressing cancer is endometrial cancer. In one embodiment, the FRα-expressing cancer is ovarian cancer. In a related embodiment, the ovarian cancer is platinum resistant. In another related embodiment, the ovarian cancer is taxane resistant.

In still other embodiments of these aspects of the invention, the subject is a human. In related embodiments, the subject has been previously treated with one or more cancer therapies. In one embodiment, the subject has no evidence of disease (NED).

In another aspect, also provided is a method of inducing an immune response to an endometrial tumor expressing FRα in a human subject, the method comprising administering to a subject a peptide vaccine containing at least about 1.0 mg of a peptide comprising the amino acid sequence of SEQ ID NO: 1 (E39) and an adjuvant every 3 to 4 weeks for a period of at least about six months. In one embodiment, the endometrial cancer is ovarian cancer. In one embodiment, the peptide consists of the amino acid sequence of SEQ ID NO: 1. In another embodiment, the adjuvant comprises about 0.250 GM-CSF.

In some embodiments of this aspect of the invention, the method comprises maintaining an immune response to the FRα-expressing endometrial tumor by administering a booster composition comprising an effective amount of a peptide comprising an amino acid selected from the group consisting of SEQ ID NO: 1 and SEQ ID NO: 2, and an adjuvant about six months, about twelve months or about one year after completion of the primary immunization schedule. In one embodiment, the booster composition contains a peptide consisting of the amino acid sequence of SEQ ID NO: 1 or SEQ ID NO: 2. In one embodiment, the booster composition comprises a peptide consisting of the amino acid sequence of SEQ ID NO: 1. In one embodiment, the booster composition comprises an peptide consisting of the amino acid sequence of SEQ ID NO: 2.

In some embodiments, the booster composition comprises about 0.5 to about 1.0 mg of the peptide. In some embodiments, the adjuvant in the booster composition is GM-CSF in an amount between about 0.01 mg to about 0.5 mg GM-CSF. In one embodiment, the booster composition comprises about 0.250 GM-CSF.

In some embodiments, the method results in one of more of the following: (i) a decrease in the number FRα-expressing tumor cells; (ii) inhibition of FRα expressing tumor growth; (iii) inhibition of FRα expressing tumor cell infiltration into peripheral organs; (iv) inhibition of FRα expressing tumor metastasis; (v) prevention or delay of FRα expressing tumor recurrence; and (vi) an increase in progression free survival (PFS). In one embodiment, the method reduces the risk of cancer recurrence in a subject who is in clinical remission from an endometrial tumor which expresses folate receptor alpha (FRα). In one embodiment, the tumor is ovarian carcinoma.

Also provided are kits that include the peptide vaccines used in the methods of the invention. In one embodiment, the kit contains the E39 peptide vaccine in a unit dosage form of about 1.0 mg. In one embodiment, the kit contains a first peptide vaccine containing the E39 peptide and a second peptide vaccine containing the E39′ peptide each in a therapeutically effective amount adapted for use in the methods described herein. In one embodiment, the kit contains the first and second peptide vaccines in unit dosage form.

Other features and advantages of the instant disclosure will be apparent from the following detailed description and examples, which should not be construed as limiting.

BRIEF DESCRIPTION OF THE FIGURES

FIG. 1 is a flow diagram depicting the treatment protocol for patients enrolled in phase I/IIa clinical trial.

FIG. 2 is a bar graph depicting the maximum local systemic toxicity experienced by patients vaccinated with E39. There was a statistically significant different between the local toxicity experienced by the OPT vs nOPT group, p=0.04. No significant difference was noted within systemic toxicity.

FIG. 3 is a bar graph depicting the local reactions to vaccination and DTH response before and after the primary vaccination series according to dosing cohorts expressed as the orthogonal mean of the reaction size and expressed as means. The average size of induration to E39 prior to vaccination was 5.7±1.5 mm compared to 10.3±2.8 mm post-vaccination (p=0.06). OPT patients had a statistically significant increase in pre-vaccination versus post-vaccination DTH (3.86±2.0 mm vs 9.5±3.5 mm, p=0.03), while nOPT patients experienced a smaller increase in pre- vs post-vaccination, which was not statistically significant (7.8±2.1 mm vs 11.3±4.8 mm, p=0.28).

FIG. 4 depicts the 2-year estimated Kaplan Meier disease-free survival curves for vaccinated patients was 43% (95% confidence interval (CI): 18-66%) versus 33.6% (95% CI: 13-56%) in control patients (p=0.36). The vaccinated patients experienced a 31% reduction in relative recurrence risk regardless of dose.

FIG. 5 depicts the 2-year estimated Kaplan Meier disease-free survival curves for the subgroup analysis performed based on E39 peptide dosing. The 2-year estimated DFS indicated a significant survival advantage for the OPT group at 85.7% (95% CI: 54-96%) compared to controls at 33.6% (95% CI: 13-56%) and the nOPT group at 20.8% (95% CI: 4-47%). Comparing the OPT and control groups, there was an 83% reduction in relative risk of recurrence.

FIG. 6 is a bar graph depicting maximum local and systemic toxicity levels experienced by patients in the EE, EE′ and E′E arms of a randomized phase Ib trial.

FIG. 7 is a bar graph depicting the ex vivo CTL immune responses in patients in EE, EE′ and E′E arms of a randomized phase Ib trial as measured by dextramer assay.

FIG. 8 is a bar graph depicting the local reactions to vaccination in the EE, EE′ and E′E arms of a randomized phase Ib trial expressed as the orthogonal mean of the reaction size and expressed as means.

FIG. 9 is a bar graph depicting the DTH response to vaccination in the EE, EE′ and E′E arms of a randomized phase Ib trial expressed as the orthogonal mean of the reaction size and expressed as means.

DETAILED DESCRIPTION OF THE INVENTION Definitions

In order that the present description may be more readily understood, certain terms are first defined. Additional definitions are set forth throughout the detailed description. Unless defined otherwise, all technical and scientific terms used herein have the same meaning as commonly understood by one of ordinary skill in the art, and conventional methods of immunology, protein chemistry, biochemistry, recombinant DNA techniques and pharmacology are employed.

As used herein, the singular forms “a”, “an” and “the” include plural referents unless the context clearly dictates otherwise. The use of “or” or “and” means “and/or” unless stated otherwise. Furthermore, use of the term “including” as well as other forms, such as “include”, “includes”, and “included”, is not limiting.

The term “about” as used herein when referring to a measurable value such as an amount, a temporal duration and the like, is encompasses variations of up to ±10% from the specified value. Unless otherwise indicated, all numbers expressing quantities of ingredients, properties such as molecular weight, reaction conditions, etc., used herein are to be understood as being modified by the term “about”.

The term “antigen” as used herein is defined as an entity which elicits an immune system response. The term herein may be abbreviated to “Ag.”

“Booster” refers to a dose of an immunogen administered to a patient to enhance, prolong, or maintain protective immunity and to overcome the down-regulation of T-cell responses mediated by regulatory T-cells.

The term “cancer” as used herein is defined as a tissue of uncontrolled growth or proliferation of cells, such as a tumor. As used herein, the term includes pre-malignant as well as malignant cancers. “Ovarian cancer” includes primary peritoneal or fallopian tube malignancies.

The term “deplete” in the context the therapeutic methods disclosed herein refers to a reduction in the number of, or elimination of cancer cells expressing folate receptor alpha.

The terms “effective treatment” or “positive therapeutic response” are used interchangeably to refer to a course of treatment producing a beneficial effect, e.g., amelioration of at least one symptom of a disease or disorder. A beneficial effect can take the form of an improvement over baseline, i.e., an improvement over a measurement or observation made prior to initiation of therapy according to the methods provided herein, including slowing, stopping or reversing the progression of a FRα expressing cancer in a subject at any clinical stage, as evidenced by a decrease or elimination of a clinical or diagnostic symptom of the disease after administration of the FRα peptide vaccines in accordance with the methods described herein. Effective treatment may, for example, decrease in tumor size, decrease the presence of circulating tumor cells, reduce or prevent metastases of a tumor, slow or arrest tumor growth and/or prevent or delay tumor recurrence or relapse.

“Effective amount,” or “therapeutically effective amount” are used interchangeably herein, and refer to an amount of a compound or composition, used according to the methods provided herein that is effective to inhibit the occurrence or ameliorate one or more clinical or diagnostic symptoms of a FRα expressing cancer, as determined by any means suitable in the art. Such results can include, but are not limited to, an increase in FRα-specific cytotoxic T-lymphocytes (CTLs), a decrease in circulating tumor cells, a decrease in tumor size, the cessation of tumor growth and/or the prevention or delay of tumor recurrence or relapse in a subject. An effective amount of a peptide vaccine(s) is administered according to the methods described herein in an “effective regimen” which refers to a combination of amount of the peptide vaccine(s), order of administration and dosage frequency adequate to effect treatment.

The term “epitope” as used herein is defined as a short peptide derived from a protein antigen which binds to an MHC molecule and is recognized by a particular T cell. An epitopic core sequence, as used herein, is a relatively short stretch of amino acids that is “complementary” to, and therefore will bind, receptors on CTLs. It will be understood that in the context of the present disclosure, the term “complementary” refers to amino acids or peptides that exhibit an attractive force towards each other.

As used herein, the term “an epitope(s) that is immunologically recognized by a CTL” is intended to refer to a peptide or protein antigen which includes a primary, secondary or tertiary structure similar to an epitope located within a FRα polypeptide. The level of similarity will generally be to such a degree that the same population of CTLs will also bind to, react with, or otherwise recognize, the cross-reactive peptide or protein antigen.

The term “folate receptor α” (also referred to as FRα, FRA, FR-alpha, FOLR-1, folate binding protein, FBP, FOLR1, LK26 trophoblastic antigen and GP38) refers to the alpha isoform of the high affinity receptor for folate. Membrane bound FRα is attached to the cell surface by a glycosyl phosphtidylinositol (GPI) anchor, recycles between extracellular and endocytic compartments and is capable of transporting folate into the cell. FRα is expressed in a variety of epithelial tissues including those of the female reproductive tract, placenta, breast, kidney, proximal tubules, choroid plexus, lung and salivary glands. Soluble forms of FRα may be produced by the action of proteases or phospholipase. As used herein “soluble FRα” refers to FRα that is not membrane bound and is present in biological fluids, e.g., serum or urine. For example, soluble FRα may be shed, secreted or exported from normal or cancerous cells into biological fluids.

(SEQ ID NO: 3) tcaaggttaa acgacaagga cagacatggc tcagcggatg acaacacagc tgctgctcct 60 tctagtgtgg gtggctgtag taggggaggc tcagacaagg attgcatggg ccaggactga 120 gcttctcaat gtctgcatga acgccaagca ccacaaggaa aagccaggcc ccgaggacaa 180 gttgcatgag cagtgtcgac cctggaggaa gaatgcctgc tgttctacca acaccagcca 240 ggaagcccat aaggatgttt cctacctata tagattcaac tggaaccact gtggagagat 300 ggcacctgcc tgcaaacggc atttcatcca ggacacctgc ctctacgagt gctcccccaa 360 cttggggccc tggatccagc aggtggatca gagctggcgc aaagagcggg tactgaacgt 420 gcccctgtgc aaagaggact gtgagcaatg gtgggaagat tgtcgcacct cctacacctg 480 caagagcaac tggcacaagg gctggaactg gacttcaggg tttaacaagt gcgcagtggg 540 agctgcctgc caacctttcc atttctactt ccccacaccc actgttctgt gcaatgaaat 600 ctggactcac tcctacaagg tcagcaacta cagccgaggg agtggccgct gcatccagat 660 gtggttcgac ccagcccagg gcaaccccaa tgaggaggtg gcgaggttct atgctgcagc 720 catgagtggg gctgggccct gggcagcctg gcctttcctg cttagcctgg ccctaatgct 780 gctgtggctg ctcagctgac ctccttttac cttctgatac ctggaaatcc ctgccctgtt 840 cagccccaca gctcccaact atttggttcc tgctccatgg tcgggcctct gacagccact 900 ttgaataaac cagacaccgc acatgtgtct tgagaattat ttggaaaaaa aaaaaaaaaa 960 aa 962 (SEQ ID NO: 4) Met Ala Gln Arg Met Thr Thr Gln Leu Leu Leu Leu Leu Val Trp Val Ala Val Val Gly Glu Ala Gln Thr Arg Ile Ala Trp Ala Arg Thr Glu Leu Leu Asn Val Cys Met Asn Ala Lys His His Lys Glu Lys Pro Gly Pro Glu Asp Lys Leu His Glu Gln Cys Arg Pro Trp Arg Lys Asn Ala Cys Cys Ser Thr Asn Thr Ser Gln Glu Ala His Lys Asp Val Ser Tyr Leu Tyr Arg Phe Leu Trp Asn His Cys Gly Glu Met Arg Pro Ala Cys Lys Arg His Phe Ile Gln Asp Thr Cys Leu Tyr Glu Cys Ser Pro Asn Leu Gly Pro Trp Ile Gln Gln Val Asp Gln Ser Trp Arg Lys Glu Arg Val Leu Asn Val Pro Leu Cys Lys Glu Asp Cys Glu Gln Trp Trp Glu Asp Cys Arg Thr Ser Tyr Thr Cys Lys Ser Asn Trp His Lys Gly Trp Asn Trp Thr Ser Gly Phe Asn Lys Cys Ala Val Gly Ala Ala Cys Gln Pro Phe His Phe Tyr Phe Pro Thr Pro Thr Val Leu Cys Asn Glu Ile Trp Thr His Ser Tyr Lys Val Ser Asn Tyr Ser Arg Gly Ser Gly Arg Cys Ile Gln Met Trp Phe Asp Pro Ala Gln Gly Asn Pro Asn Glu Glu Val Ala Arg Phe Tyr Ala Ala Ala Met Ser Gly Ala Gly Pro Trp Ala Ala Trp Pro Phe Leu Leu Ser Leu Ala Leu Met Leu Leu Trp Leu Leu Ser

“Free of cancer” or “disease free” or NED (No Evidence of Disease) means that the patient is in clinical remission induced by treatment with the current standard of care therapies. By “remission” or “clinical remission,” which are used synonymously, it is meant that the clinical signs, radiological signs, and symptoms of cancer have been significantly diminished or have disappeared entirely based on clinical diagnostics, although cancerous cells can still exist in the body. Thus, it is contemplated that remission encompasses partial and complete remission. The presence of residual cancer cells can be enumerated by assays such as CTC (Circulating Tumor Cells) and can be predictive of recurrence.

The term “immune response” as used herein refers to a cellular immune response, including eliciting stimulation of T lymphocytes, macrophages, and/or natural killer cells.

The term “immunity” as used herein is defined as the ability to provide resistance to a tumor resulting from exposure to an antigen that is a folate binding protein epitope.

The term “inhibit” or “inhibition” means to reduce by a measurable amount.

The “level” of a specified protein refers to the amount of protein in a sample as determined using any method known in the art for measuring protein levels, including electrophoresis, capillary electrophoresis, high performance liquid chromatography (HPLC), thin layer chromatography (TLC), hyperdiffusion chromatography, fluid or gel precipitation reactions, absorption spectroscopy, colorimetric assays, spectrophotmetric assays, flow cytometry, immmunodiffusion, solution phase assay, immunoelectrophoresis, Western blotting, radioimmunoassay (RIA), enzyme-linked immunosorbent assays (ELISAs), immunofluorescent assays and electrochemiliminescence immunoassays.

“Peptide” refers to any peptide comprising two or more amino acids joined by peptide bonds or modified peptide bonds (e.g., peptide isosteres). Peptides can contain amino acids other than the 20 naturally occurring nucleic acid encoded amino acids, and include amino acid sequences modified either by natural processes, such as post-translational processing, or by chemical modification techniques which are well known in the art. Modifications can occur anywhere in a peptide, including the peptide backbone, the amino acid side-chains and the amino or carboxyl termini. It will be appreciated that the same type of modification can be present in the same or varying degrees at several sites in a given peptide. Also, a given polypeptide can contain many types of modifications. Polypeptides can be branched as a result of ubiquitination, and they can be cyclic, with or without branching. Cyclic, branched and branched cyclic polypeptides can result from natural posttranslational processes or can be made by synthetic methods. Modifications include acetylation, acylation, ADP-ribosylation, amidation, covalent attachment of flavin, covalent attachment of a heme moiety, covalent attachment of a nucleotide or nucleotide derivative, covalent attachment of a lipid or lipid derivative, covalent attachment of phosphotidylinositol, cross-linking, cyclization, disulfide bond formation, demethylation, formation of covalent cross-links, formation of cystine, formation of pyroglutamate, formylation, gamma-carboxylation, glycosylation, GPI anchor formation, hydroxylation, iodination, methylation, myristoylation, oxidation, proteolytic processing, phosphorylation, prenylation, racemization, selenoylation, sulfation, transfer-RNA mediated addition of amino acids to proteins such as arginylation, and ubiquitination.

The term “prevent” refers to any success or indicia of success in the forestalling of cancer recurrence or relapse in a subject in clinical remission, as measured by any objective or subjective parameter, including the results of a radiological or physical examination, or in the level of circulating tumor cells.

“Protective immunity” or “protective immune response” means that a subject mounts an active immune response to an immunogenic component of an antigen such as the FRα antigens described and exemplified herein, such that upon subsequent exposure to the antigen, the subject's immune system is able to target and destroy cells expressing the antigen, thereby decreasing the incidence of morbidity and mortality associated with cancer in the subject. For example, protective immunity in the context of the present methods is conferred at least partially by T lymphocytes.

“Optimal biologic dose (OBD)” is defined as the minimum dose of a drug that gives the most optimal and lasting in vivo response without clinically unacceptable toxicity. For example, the OBD of a peptide vaccine is the amount that gives the most optimal and lasting in vivo immunologic response to the peptide.

“Relapse” or “recurrence” or “resurgence” are used interchangeably herein, and refer to the radiographic diagnosis of return, or signs and symptoms of return of cancer after a period of improvement or remission.

The term “sample” refers to a collection of fluids, cells or tissues isolated from a subject. Biological fluids are typically liquids at physiological temperatures and may include naturally occurring fluids present in, withdrawn from, expressed or otherwise extracted from a subject or biological source. Examples of biological fluids include blood, serum, serosal fluids, plasma, lymph, urine, cerebrospinal fluid, saliva, ocular fluids, cystic fluid, tear drops, feces, sputum, mucosal secretions, vaginal secretions, gynecological fluids, ascites fluids such as those associated with non-solid tumors, fluids of the pleural, pericardial, peritoneal, abdominal and other body cavities, fluids collected by bronchial lavage and the like.

The term “control sample”, as used herein, refers to any clinically relevant control sample, including, for example, a sample from a healthy subject or a sample made at an earlier timepoint from the subject to be assessed. For example, the control sample can be a sample taken from the subject prior to onset of cancer, at an earlier stage of disease, or before the administration of treatment or of a portion of treatment.

The term “subject” or “patient” are used interchangeably herein and refer to a mammal such as a human, mouse, rat, hamster, guinea pig, rabbit, cat, dog, monkey, cow, horse, pig and the like.

As used herein, “substantially purified” refers to a vaccine component (e.g, a protein, polypeptide, or peptide) that has a level of purity where the compound is substantially free from other chemicals, biomolecules or cells. For example, a substantially purified vaccine component is about 60%, about 70%, about 80%, about 90%, about 95%, about 99% or more a free of the other components of the manufacturing process (e.g., cellular extract or reagents of chemical synthesis). Various techniques suitable for use in chemical, biomolecule or biological purification, well known to those of skill in the art, may be applicable to preparation of a vaccine component of the present invention. These include, for example, precipitation with ammonium sulfate, polyethylene glycol (PEG), antibodies and the like or by heat denaturation, followed by centrifugation; fractionation, chromatographic procedures, including but not limited to, partition chromatograph (e.g., paper chromatograph, thin-layer chromatograph (TLC), gas-liquid chromatography and gel chromatography) gas chromatography, high performance liquid chromatography, affinity chromatography, supercritical flow chromatography ion exchange, gel filtration, reverse phase, hydroxylapatite, lectin affinity; isoelectric focusing and gel electrophoresis (see for example, Sambrook et al. 1989; and Freifelder, Physical Biochemistry, Second Edition, pages 238-246, incorporated herein by reference).

The term “variant” as used herein is defined as a modified or altered form of a wildtype sequence. The term “folate binding protein variant” as used herein is defined as a folate binding protein and peptides thereof which are preferably recognized by helper T cells or cytotoxic T cells and may be naturally derived, synthetically produced, genetically engineered, or a functional equivalent thereof, e.g. where one or more amino acids may be replaced by other amino acid(s), (e.g., or non-amino acid(s) which do not substantially affect function. In some embodiments, the variant may contain an altered side chain for at least one amino acid residue.

Various aspects described herein are described in further detail in the following subsections.

Peptides

The peptides used in the methods of the invention comprise the FRα epitopes E39 having the amino acid sequence EIWTHSYKV (SEQ ID NO: 1), and E39′ having the amino acid sequence EIWTFSTKV (SEQ ID NO: 2).

Peptides for use in accordance with the methods provided herein will generally be on the order of 9 to 20 amino acids in length, and more preferably about 9 to about 15 amino acids in length, and comprise the epitope core sequence of E39 (SEQ ID NO: 1) or E39′ (SEQ ID NO: 2). In certain embodiments, the peptides are at least about 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19 or 20 amino acids in length. In one embodiment, the peptides consist of the amino acid sequence of E39 (SEQ ID NO: 1), and E39′ (SEQ ID NO: 2).

Modification and changes may be made in the structure of the peptides of the present invention and still yield a functional peptide with desirable characteristics. Accordingly, “functional equivalents” are defined herein as those peptides or polypeptides which maintain a substantial amount of their original immunological activity. For example, certain amino acids may be substituted for other amino acids in a protein structure without appreciable loss of interactive binding capacity with structures such as, for example, antigen-binding regions of antibodies or binding sites on substrate molecules. It is thus contemplated that various changes may be made in the peptide sequences of the disclosed compositions without appreciable loss of their biological utility or activity. Amino acid substitutions may be based on the relative similarity of the amino acid side-chain substituents, for example, their hydrophobicity, hydrophilicity, charge, size, and the like. Exemplary substitutions which take various of the foregoing characteristics into consideration are well known to those of skill in the art, and such immunologically functional equivalents are also encompassed within the present invention.

Accordingly, an antigenic composition, particularly an immunologically functional equivalent of the sequences disclosed herein, may encompass an amino acid substitution comprising at least one of the 20 common amino acids in naturally synthesized proteins, or at least one modified or unnatural amino acid, including but not limited to 2-Aminoadipic acid, N-Ethylasparagine, 3-Aminoadipic acid, Hydroxylysine, β-alanine, Allo-Hydroxylysine propionic acid, 2-Aminobutyric acid, 3-Hydroxyproline, 4-Aminobutyric acid, 4-Hydroxyproline, piperidinic acid, 6-Aminocaproic acid, Isodesmosine, 2-Aminoheptanoic acid, Allo-Isoleucine, 2-Aminoisobutyric acid, N-Methylglycine, sarcosine, 3-Aminoisobutyric acid, N-Methylisoleucine, 2-Aminopimelic acid, 6-N-Methyllysine, 2,4-Diaminobutyric acid, N-Methylvaline, Desmosine, Norvaline, 2,2′-Diaminopimelic acid, Norleucine, 2,3-Diaminopropionic acid, Ornithine, and N-Ethylglycine.

Such amino acid substitutions are generally based on the relative similarity of the amino acid side-chain substituents, for example, their hydrophobicity, hydrophilicity, charge, size, and the like. An analysis of the size, shape and type of the amino acid side-chain substituents reveals that arginine, lysine and histidine are all positively charged residues; that alanine, glycine and serine are all a similar size; and that phenylalanine, tryptophan and tyrosine all have a generally similar shape. In addition to the peptidyl compounds described herein, other sterically similar compounds (e.g., peptidomimetics) may be formulated to mimic the key portions of the peptide structure to elicit a functionally equivalent immune response.

Syntheses of the FRα peptides or their functional equivalents are readily achieved using conventional synthetic techniques including, but not limited to solid phase synthesis and purification by HPLC as described in U.S. Pat. Nos. 7,547,759, 8,258,261 and 8,8152,56, hereby incorporated by reference. Preferably, the FRα peptides are isolated and extensively dialyzed to remove one or more undesired small molecular weight molecules and/or lyophilized for more ready formulation into a desired vehicle. Peptide antigens synthesized in this manner may then be aliquoted in predetermined amounts and stored in conventional manners, such as in aqueous solutions or, preferably, in a powder or lyophilized state pending use.

In general, due to the relative stability of peptides, they may be readily stored in aqueous solutions for fairly long periods of time if desired, e.g., up to six months or more, in virtually any aqueous solution without appreciable degradation or loss of antigenic activity. However, where extended aqueous storage is contemplated it will generally be desirable to include agents including buffers such as Tris or phosphate buffers to maintain a pH of about 7.0 to about 7.5. Moreover, it may be desirable to include agents which will inhibit microbial growth, such as sodium azide or Merthiolate. For extended storage in an aqueous state it will be desirable to store the solutions at 4° C., or frozen. Of course, where the peptides are stored in a lyophilized or powdered state, they may be stored virtually indefinitely, e.g., in metered aliquots that may be rehydrated with a predetermined amount of water (preferably distilled) or buffer prior to use.

Pharmaceutical Compositions

The peptide compositions can be formulated as freeze-dried or liquid preparations according to any means suitable in the art. Peptide compositions comprising the E39 or E39′ peptide antigens can be prepared using techniques well known to those skilled in the art including, but not limited to, mixing, sonication and microfluidation.

The peptide compositions can be formulated in either neutral or salt forms. Pharmaceutically acceptable salts include the acid addition salts (formed with the free amino groups of the active polypeptides) and which are formed with inorganic acids such as, for example, hydrochloric or phosphoric acids, or organic acids such as acetic, oxalic, tartaric, mandelic, and the like. Salts formed from free carboxyl groups can also be derived from inorganic bases such as, for example, sodium, potassium, ammonium, calcium, or ferric hydroxides, and such organic bases as isopropylamine, trimethylamine, 2-ethylamino ethanol, histidine, procaine, and the like.

In general, the peptide compositions typically comprise a pharmaceutically acceptable carrier. As used herein, the term “pharmaceutically acceptable” means approved by a government regulatory agency or listed in the U.S. Pharmacopeia or another generally recognized pharmacopeia for use in animals, particularly in humans. The term “carrier” refers to a diluent, adjuvant, excipient, or vehicle with which the compound is administered.

In certain embodiments, the peptide compositions are provided in dosage unit form for ease of administration and uniformity of dosage. Dosage unit form as used herein refers to physically discrete units suited as unitary dosages for the subjects to be treated; each unit contains a predetermined quantity of active compound calculated to produce the desired therapeutic effect in association with the required pharmaceutical carrier.

In certain embodiments, the peptide compositions are formulated in a liquid form suitable for parenteral administration. Routes of parenteral administration by injection include intravenous, intraperitoneal, intramuscular, intrathecal and subcutaneous. In one embodiment, the peptide compositions are formulated for inoculation or injection, for example, either subcutaneously (intradermally) or intramuscularly into the subject.

Non-limiting examples of liquid form preparations include solutions, suspensions, syrups, slurries, and emulsions. Suitable liquid carriers include any suitable organic or inorganic solvent, for example, water, alcohol, saline solution, buffered saline solution, physiological saline solution, dextrose solution, propylene glycol solutions, water-in-oil emulsions, biodegradable oil vehicles, oil-in-water emulsions, liposome emulsions, and the like, and combinations thereof, preferably in sterile form.

Sterile injectable solutions are prepared by incorporating the active compounds in the required amount in the appropriate solvent with various of the other ingredients enumerated above, as required, followed by filtered sterilization. Generally, dispersions are prepared by incorporating the various sterilized active ingredients into a sterile vehicle which contains the basic dispersion medium and/or the other ingredients. In the case of sterile powders for the preparation of sterile injectable solutions, suspensions or emulsion, the preferred methods of preparation are vacuum-drying or freeze-drying techniques which yield a powder of the active ingredient plus any additional desired ingredient from a previously sterile-filtered liquid medium thereof. The liquid medium should be suitably buffered if necessary and the liquid diluent first rendered isotonic prior to injection with sufficient saline or glucose. The preparation of highly concentrated compositions for direct injection is also contemplated, where the use of dimethyl sulfoxide (DMSO) as solvent is envisioned to result in extremely rapid penetration, delivering high concentrations of the active agents to a small area.

In one embodiment, the peptide compositions are provided in bacteriostatic water. In another embodiment, the peptide compositions are stored at or near 0° C. and thawed prior to use.

In alternative embodiments, the vaccine compositions can also be formulated in sustained release vehicles or depot preparations. Such long acting formulations can be administered by inoculation or implantation (for example subcutaneously or intramuscularly) or by injection. Thus, for example, the vaccine compositions can be formulated with suitable polymeric or hydrophobic materials (for example, as an emulsion in an acceptable oil) or ion exchange resins, or as sparingly soluble derivatives, for example, as a sparingly soluble salt. Liposomes and emulsions are well-known examples of delivery vehicles suitable for use as carriers.

In addition, if desired, the peptide compositions may contain minor amounts of auxiliary substances such as wetting or emulsifying agents, pH buffering agents, bacteriostatic agents and/or antioxidants. Suitable agents which prevent the action of microorganisms can be brought about by preservatives such as various antibacterial and antifungal agents, including but not limited to parabens (e.g, methylparabens, propylparabens), chlorobutanol, phenol, sorbic acid, thimerosal or combinations thereof. Suitable preservatives for use in such a solution include benzalkonium chloride, benzethonium chloride, chlorobutanol, thimerosal and the like. Suitable buffers include boric acid, sodium and potassium bicarbonate, sodium and potassium borates, sodium and potassium carbonate, sodium acetate, sodium biphosphate and the like, in amounts sufficient to maintain the pH at between about pH 6 and pH 8, and preferably, between about pH 7 and pH 7.5. Suitable tonicity agents are dextran 40, dextran 70, dextrose, glycerin, potassium chloride, propylene glycol, sodium chloride, and the like, such that the sodium chloride equivalent of the ophthalmic solution is in the range 0.9±0.2%. Suitable antioxidants and stabilizers include sodium bisulfite, sodium metabisulfite, sodium thiosulfate, thiourea and the like. Suitable wetting and clarifying agents include polysorbate 80, polysorbate 20, poloxamer 282 and tyloxapol. Suitable viscosity-increasing agents include dextran 40, dextran 70, gelatin, glycerin, hydroxyethylcellulose, hydroxmethyl-propylcellulose, lanolin, methylcellulose, petrolatum, polyethylene glycol, polyvinyl alcohol, polyvinylpyrrolidone, carboxymethylcellulose and the like.

Additional formulations which are suitable for other modes of administration include oral formulations. In these embodiments, the solid composition may comprise, for example, solutions, suspensions, emulsions, tablets, pills, capsules (e.g, hard or soft shelled gelatin capsules), sustained release formulations, buccal compositions, troches, elixirs, suspensions, syrups, wafers, or combinations thereof. Oral compositions may be incorporated directly with the food of the diet. Preferred carriers for oral administration comprise inert diluents, assimilable edible carriers or combinations thereof. In other aspects of the invention, the oral composition may be prepared as a syrup or elixir, and may comprise, for example, at least one active agent, a sweetening agent, a preservative, a flavoring agent, a dye, a preservative, or combinations thereof.

In other embodiments, one may use nasal solutions or sprays, aerosols or inhalants in the present invention. Such compositions are generally designed to be compatible with the target tissue type. In a non-limiting example, nasal solutions are usually aqueous solutions designed to be administered to the nasal passages in drops or sprays. Nasal solutions are prepared so that they are similar in many respects to nasal secretions, so that normal ciliary action is maintained. Thus, in preferred embodiments the aqueous nasal solutions usually are isotonic or slightly buffered to maintain a pH of about 5.5 to about 6.5. In addition, antimicrobial preservatives, similar to those used in ophthalmic preparations, drugs, or appropriate drug stabilizers, if required, may be included in the formulation. For example, various commercial nasal preparations are known and include drugs such as antibiotics or antihistamines.

Additional formulations which are suitable for other modes of administration include suppositories. Suppositories are solid dosage forms of various weights and shapes, usually medicated, for insertion into the rectum, vagina or urethra. After insertion, suppositories soften, melt or dissolve in the cavity fluids. In general, for suppositories, traditional carriers may include, for example, polyalkylene glycols, triglycerides or combinations thereof. In certain embodiments, suppositories may be formed from mixtures containing, for example, the active ingredient in the range of about 0.5% to about 10%, and preferably about 1% to about 2%.

Adjuvants

In certain embodiments, the peptide vaccine compositions can comprise agents that enhance the protective efficacy of the vaccine, such as adjuvants. Adjuvants include any compound or compounds that act to increase a protective immune response to the FRα peptide antigen, thereby reducing the quantity of antigen necessary in the vaccine, and/or the frequency of administration necessary to generate a protective immune response.

Suitable adjuvants include emulsifiers, muramyl dipeptides, pyridine, aqueous adjuvants such as aluminum hydroxide, chitosan-based adjuvants, saponins, oils, Freund's Complete Adjuvant (FCA) and Freund's Incomplete Adjuvant (FIA), N-acetylmuramyl-L-alanine-D-isoglutamine (MDP) compounds such as thur-MDP and nor-MDP, lipopoly-saccharides (LPS), glucan, and GMCSP, BCG, lipid A, and monophosphoryl lipid A (MPL), RIBI and cytokines including interleukin 1 (IL-1), IL-2, IL-3, IL-4, IL-5, IL-6, IL-7, IL-8, IL-9, IL-10, IL-11, IL-12, IL-13, IL-14, IL-15, IL-18, β-interferon, α-interferon, γ-interferon, angiostatin, thrombospondin, endostatin, GM-CSF, G-CSF, M-CSF, METH-1, METH-2, tumor necrosis factor, TGFb, LT and combinations thereof. As used herein, the term cytokine includes proteins from natural sources or from recombinant cell culture and biologically active equivalents of the native sequence cytokines.

In a preferred embodiment, the immunoadjuvant is GM-CSF.

Biological Response Modifiers

In addition to adjuvants, in some embodiments, it may be desirable to coadminister biological response modifiers (BRMs), which have been shown to upregulate T cell immunity or down-regulate suppressor cell activity. Such BRMs include, but are not limited to, Cimetidine (CIM; 1200 mg/d) (Smith/Kline, PA); low-dose Cyclophosphamide (CYP; 300 mg/m2) (Johnson/Mead, NJ), cytokines such as γ-interferon, IL-2, or IL-12 or genes encoding proteins involved in immune helper functions, such as B-7.

Chemokines, nucleic acids that encode for chemokines, and/or cells that express such also may be used as vaccine components. Chemokines generally act as chemoattractants to recruit immune effector cells to the site of chemokine expression. It may be advantageous to express a particular chemokine coding sequence in combination with, for example, a cytokine coding sequence, to enhance the recruitment of other immune system components to the site of treatment. Such chemokines include, for example, RANTES, MCAF, MIP1-alpha, MIP1-Beta, IP-10 and combinations thereof. The skilled artisan will recognize that certain cytokines are also known to have chemoattractant effects and could also be classified under the term chemokines.

In one embodiment, the methods of the invention further include administration of an immunostimulatory cocktail called COVAX, consisting of a Toll-like receptor 7 (TLR7) agonist (e.g., imiquimod cream), an agonistic anti-CD40 antibody, and interleukin-2 (IL-2).

Patient Selection

Provided herein are effective methods for treating patients having a FRα-expressing cancer. In one embodiment, the FRα-expressing cancer is an epithelial malignancy. In some embodiments, FRα-expressing cancer is selected from ovarian cancer, breast cancer, endometrial cancer, cervical cancer, colorectal cancer, lung cancer, uterine cancer, osteosarcoma, renal cell carcinoma, mesothelioma, CNS sarcoma, ependyoma and pituitary adenoma, or a combination of one or more of the above. In a particular embodiment, the FRα-expressing cancer is ovarian cancer. In another embodiment, the FRα-expressing cancer is endometrial cancer. In yet another particular embodiment, the FRα-expressing cancer is breast cancer. In a related embodiment, the breast cancer is triple negative breast cancer. In yet another embodiment, the FRα-expressing cancer is lung cancer, for example, non-small cell lung carcinoma.

In one embodiment, patients are selected using art recognized techniques for determining the FRα protein or nucleic acid expression levels. For example, the tumor can be biopsied and protein or nucleic acid expression level of FRα determined by immunohistochemistry or fluorescence in situ hybridization using as previously described (e.g., Shia et al. Human Pathol. 39:498-505, 2008; Leung et al. Clin. Biochem 46; 1462-1468, 2013; O'Shannessy et al. OncoTarget. 2:1227-1243, 2011). A statistically increased level of FRα over baseline (e.g., compared to healthy controls) is indicative that the subject has a FRα expressing cancer. In some embodiment, the IHC rating of FRα is determined according to known techniques (e.g., Markert et al. Anticancer Res. 28:3567-3572, 2008). In one embodiment, the subject has a FRα-expressing tumor with an IHC of 1+, 2+ or 3+. In one embodiment, the FRα-expressing tumor has an IHC of at least 2+. In another embodiment, the FRα-expressing tumor has an IHC of 3+.

In another embodiment, patients are selected by determining the level of serum carbohydrate antigen 125 (CA 125) expression in the subject according to methods known in art (e.g., Bast R C et al., N Engl J Med. 309:883-887 (1983); Bon G C et al., Am J Obstet. Gynecol. 174:107-114 (1996). Measurement of CA125 can be performed with different commercial assays resulting in a certain degree of variation. For example, the upper limit of normal for CA125 in the Immulite® assay is currently established to be about 21 units per milliliter (U/Ml). In other CA125 assays (e.g., Abbott Architect, Beckman Access) the upper limit of normal for CA125 is established to be about 35 U/ml. The majority of assays appear to be both clinically reliable and correlative (Cohen et al. World J. Chem 5(3):286-300, 2014).

In yet another embodiment, the patients are selected by determining the serum levels of both FRα and CA125 using may be determined using any clinically acceptable means known in the art, for example, as described in Leung et al. (Clin. Biochem 46, 1462-1468, 2013).

In one embodiment, the FRα-expressing cancer is locally advanced or metastatic. In another embodiment, the patient has no evidence of disease following at least one chemotherapy-containing regimen that is considered standard of care for that cancer type. In another embodiment, the FRα-expressing cancer has recurred or progressed following at least one chemotherapy-containing regimen that is considered standard of care for that cancer type.

In some embodiments, the patient is selected as having a FRα-expressing cancer that has demonstrated resistance to a chemotherapy based treatment. In one particular embodiment, the patient has a FRα-expressing cancer that is resistant to a platinum-based chemotherapy. In another embodiment, the patient is selected as having a FRα-expressing cancer that has demonstrated resistance to a taxane-based chemotherapy. In yet another embodiment, the patient is selected as having a FRα-expressing cancer that has demonstrated resistance to both a platinum-based chemotherapy and a taxane-based chemotherapy. In one particular, the patient has ovarian cancer that is platinum-resistant, taxane-resistant or both.

In another embodiment, the patient meets one or more of the following clinical criteria:

-   -   (1) no evidence of disease (NED) after completion of primary         first-line therapies (i.e., surgery, chemotherapy, immunotherapy         and radiation therapy as appropriate per standard of care for         patient's specific cancer);     -   (2) post-menopausal or rendered surgically infertile;     -   (3) good performance status (Karnofsky >60%, ECOG ≤2), CBC, CMP         and A-125.

Treatment Regimens

The primary immunization schedule for a subject is sufficient to induce and/or sustain a therapeutically effective immune response to FRα. For example, a therapeutically effective amount will provide a clinically significant increase in the number of E39-specific cytotoxic T-lymphocytes (CD8⁺) in the subject, as well as a clinically significant increase in the cytotoxic T-lymphocyte response to the FRα antigen, as measured by any means suitable in the art. A therapeutically effective amount can also destroy residual microscopic disease and significantly reduce or eliminate the risk of cancer recurrence in the subject.

Suitable treatment protocols or regimens for inducing therapeutic immunity against a FRα-expressing cancer in a subject include, for example, (a) administering to the subject an effective amount of a first peptide vaccine comprising a peptide having the amino acid sequence of SEQ ID NO: 1 and an adjuvant every three to four weeks for a period of at least two to six months; followed by (b) administering to the subject an effective amount of a second peptide vaccine comprising a peptide having the amino acid sequence of SEQ ID NO: 2 and an adjuvant every three to four weeks for a period of at least two to six months.

In one embodiment, the first peptide vaccine is administered every three to four weeks for a period of two months, and the second peptide vaccine is administered every three to four weeks for a period of two months. In one embodiment, the first peptide vaccine is administered every three to four weeks for a period of three months, and the second vaccine is administered every three to four weeks for a period of two months. In one embodiment, the first peptide vaccine is administered every three to four weeks for a period of four months, and the second vaccine is administered every three to four weeks for a period of two months. In one embodiment, the first peptide vaccine is administered every three to four weeks for a period of five months, and the second peptide vaccine is administered every three to four weeks for a period of two months. In one embodiment, the first peptide vaccine is administered every three to four weeks for a period of six months, and the second peptide vaccine is administered every three to four weeks for a period of two months.

In another embodiment, the first peptide vaccine is administered every three to four weeks for a period of two months, and the second peptide vaccine is administered every three to four weeks for a period of three months. In one embodiment, the first peptide vaccine is administered every three to four weeks for a period of three months, and the second peptide vaccine is administered every three to four weeks for a period of three months. In one embodiment, the first peptide vaccine is administered every three to four weeks for a period of four months, and the second peptide vaccine is administered every three to four weeks for a period of three months. In one embodiment, the first peptide vaccine is administered every three to four weeks for a period of five months, and the second peptide vaccine is administered every three to four weeks for a period of three months. In one embodiment, the first peptide vaccine is administered every three to four weeks for a period of six months, and the second peptide vaccine is administered every three to four weeks for a period of three months.

In another embodiment, the first peptide vaccine is administered every three to four weeks for a period of four months, and the second peptide vaccine is administered every three to four weeks for a period of four months. In one embodiment, the first peptide vaccine is administered every three to four weeks for a period of five months, and the second peptide vaccine is administered every three to four weeks for a period of four months. In one embodiment, the first peptide vaccine is administered every three to four weeks for a period of six months, and the second peptide vaccine is administered every three to four weeks for a period of four months. In one embodiment, the first peptide vaccine is administered every three to four weeks for a period of five months, and the second peptide vaccine is administered every three to four weeks for a period of five months. In one embodiment, the first peptide vaccine is administered every three to four weeks for a period of six months, and the second peptide vaccine is administered every three to four weeks for a period of five months. In one embodiment, the first peptide vaccine is administered every three to four weeks for a period of six months, and the second peptide vaccine is administered every three to four weeks for a period of six months.

In a particular embodiment, the first peptide vaccine is administered every three to four weeks for a period of three months followed by administration of the second peptide vaccine every three to four weeks for a period of three months.

Suitable treatment protocols or regimens for inducing therapeutic immunity against an endometrial tumor characterized by the expression of FRα are also provided. Such methods include administering to the subject a peptide vaccine comprising about 1.0 mg of peptide consisting of the amino acid sequence of SEQ ID NO: 1 and an adjuvant every three to four weeks for a period of at least about six months. In one embodiment, the endometrial tumor is ovarian carcinoma.

In other aspects, the methods further provide administration of a booster composition once the primary immunization schedule has been completed to bolster and/or sustain the therapeutic immunity to FRα. Booster compositions contain a peptide comprising the amino acid sequence of E39 (SEQ ID NO: 1) or E39′ (SEQ ID NO: 2) and an adjuvant. The booster composition can be administered at regular intervals of about 3, about 6, about 9 or about 12 months after completion of the primary immunization schedule. In a particular embodiment, the booster composition is administered about every 6 months. In an alternative embodiment, boosters can be administered on an as-needed basis, for example, based on when there is a decrease in the FRα immune response (as measured, e.g, by CTL or antibody titers), or an increase in circulating FRα-expressing tumor cells in the subject.

Administration of the peptide vaccine and booster compositions can be by infusion or injection (e.g., intravenously, intramuscularly, intracutaneously, subcutaneously, intrathecally, intraduodenally, intraperitoneally, and the like). The peptide vaccine compositions can also be administered intranasaly, vaginally, rectally, orally or transdermally. In a particular embodiment, the peptide vaccine compositions are administered by intradermal injection.

In some embodiments, each dose of the peptide vaccines and booster compositions can be split into multiple injections, which are administered preferably substantially concurrently. When administered as a split inoculation, the dose of the peptide vaccine or booster composition is preferably, but not necessarily, proportioned equally in each separate injection. In addition, the dose of the adjuvant is preferably, but not necessarily, proportioned equally in each separate injection. The separate injections for the split inoculation are preferably administered substantially proximal to each other on the patient's body. In one embodiment, the injections are administered at least about 1 cm apart from each other on the body. In another embodiment, the injections are administered at least about 2.5 cm apart from each other on the body. In a particular embodiment, the injections are administered at least about 5 cm apart from each other on the body. In another embodiment, the injections are administered at least about 10 cm apart from each other on the body. In other embodiments, the injections are administered more than 10 cm apart from each other on the body, for example, at least about 12.5, 15, 17.5, 20 cm or more apart from each other on the body. Primary immunization injections and booster injections can be administered as a split inoculation as described and exemplified herein.

When used in combination regiments, the peptide vaccines used in the methods provided herein comprise about 0.1 to about 2.0 mg of either the E39 or E39′ peptide. Each peptide vaccine can be administered at lower doses at the beginning of the vaccine regimen, with higher doses administered over time. The vaccines can also be administered at higher doses at the beginning of the vaccine regimen, with lower doses administered over time. In some embodiments, the first peptide vaccine comprises about 500 mcg, about 600 mcg, 700 mcg, 800 mcg, 900 mcg or 1000 mcg of the E39 peptide, and the second peptide vaccine comprises about 500 mcg, about 600 mcg, 700 mcg, 800 mcg, 900 mcg or 1000 mcg of the E39′ peptide. In one embodiment, the first peptide vaccine comprises about 500 mcg of the E39 peptide, and the second peptide vaccine comprises 500 mcg of the E39′ peptide. In another embodiment, the first peptide vaccine comprises about 1000 mcg of the E39 peptide, and the second peptide vaccine comprises 500 mcg of the E39′ peptide. In yet another embodiment, the first peptide vaccine comprises about 1000 mcg of the E39 peptide, and the second peptide vaccine comprises 1000 mcg of the E39′ peptide.

The booster compositions used in the methods provided herein comprise about 0.1 to about 2.0 mg of either the E39 or E39′ peptide. In one embodiment, the booster composition comprises about 500 mcg, about 600 mcg, 700 mcg, 800 mcg, 900 mcg or 1000 mcg of the E39 peptide. In another embodiment, the booster composition comprises about 500 mcg, about 600 mcg, 700 mcg, 800 mcg, 900 mcg or 1000 mcg of the E39′ peptide. In one preferred embodiment, the booster composition comprises about 500 mcg or about 1000 mcg of the E39 peptide. In one preferred embodiment, the booster composition comprises about 500 mcg or about 1000 mcg of the E39′ peptide.

In some embodiments, the adjuvant in the vaccine and booster can comprise from about 10% to about 50% (v/v), preferably about 20% to about 40% (v/v), and more preferably about 20% to about 30% (v/v) of the vaccine and booster compositions. In certain embodiments, the adjuvant is granulocyte macrophage-colony stimulating factor (GM-CSF). In one preferred embodiment, the vaccine and/or booster compositions comprise from about 0.01 mg to about 0.5 mg of GM-CSF. In another preferred embodiment, the vaccine and/or booster compositions comprise about 0.125 mg of GM-CSF. In another preferred embodiment, the vaccine and/or booster compositions comprise about 0.250 mg of GM-CSF.

In some embodiments, the primary immunization schedule comprises a period of about six months in which (a) the first peptide vaccine comprising 1 mg of E39 peptide and from 0.125 to 0.250 mg of GM-CSF, is administered every three to four weeks as a split inoculation of by concurrent injections about 5 cm apart on the patient's body, for a total of three doses during the first three months; and (b) the second peptide vaccine comprising 1 mg of the E39′ peptide and from 0.125 to 0.250 mg of GM-CSF, is administered every three to four weeks as a split inoculation by concurrent injections about 5 cm apart on the patient's body, for a total of three doses during the second three months.

In other embodiments, the primary immunization schedule comprises a period of about six months in which a peptide comprising 1 mg of the E39 peptide and 0.250 mg of GM-CSF is administered every three to four weeks as a split inoculation by concurrent injections about 5 cm apart on the patient's body, for a total of six doses during a six month period.

After a period of about 48 hours after each dose is administered, the injection site can be assessed for local reaction of erythema and induration. If the reactions at both sites are confluent and the area of total induration measures >100 mm (or the patient experiences any >grade 2 systemic toxicity), then the dose of GM-CSF can be reduced, for example, by half, though it is intended that the peptide dose remain the same. If the patient presents a robust reaction on subsequent doses, then further reduction of GM-CSF can occur, for example, reducing by half. If the patient does not present with a robust reaction, then the patient can continue with the higher GM-CSF dose.

In other embodiments, the administration schedule and dosing of the booster is similarly determined, with boosters beginning with administration of vaccine compositions comprising 1 mg of E39 or E39′ and 0.25 mg GM-CSF, administered about every six months following the conclusion of the primary immunization vaccine schedule.

Therapeutic Response

Subjects treated according to the methods disclosed herein may experience improvement in at least one sign or symptom associated with FRα-expressing cancer.

In one embodiment, the subject experiences tumor shrinking and/or decrease in growth rate, i.e., suppression of tumor growth. In another embodiment, recurrence of the tumor is prevented or delayed. In related embodiments, one or more of the following can occur: the number of cancer cells can be reduced; tumor size can be reduced; cancer cell infiltration into peripheral organs can be inhibited, retarded, slowed, or stopped; tumor metastasis can be slowed or inhibited; tumor growth can be inhibited; and progression free survival (PFS) is increased.

In some embodiments, therapeutic response is measured by a reduction in the quantity and/or size of measurable tumor lesions. Measurable lesions are defined as those that can be accurately measured in at least one dimension (longest diameter is to be recorded) as ≥10 mm by CT scan (CT scan slice thickness no greater than 5 mm), 10 mm caliper measurement by clinical exam or >20 mm by chest X-ray. The size of non-target lesions, e.g., pathological lymph nodes can also be measured for improvement. In one embodiment, lesions can be measured on chest x-rays or CT or MRI films.

In other embodiments, cytology or histology can be used to evaluate responsiveness to a therapy. The cytological confirmation of the neoplastic origin of any effusion that appears or worsens during treatment when the measurable tumor has met criteria for response or stable disease can be considered to differentiate between response or stable disease (an effusion may be a side effect of the treatment) and progressive disease.

In yet another embodiment, therapeutic response is measured by a decrease in recurrence rate of the FRα-expressing tumor in the subject when compared to the average recurrence rate in untreated control subjects. Recurrence of lack thereof can be expressed as disease-free survival (DFS) or recurrence-free survival (RFS) using clinically acceptable criteria.

In other embodiments, the subject experiences one or more of the following: a clinically significant increase in FRα-CTL activity; a clinically significant decrease in serum FRα levels; a clinically significant decrease serum CA125 levels; and a clinically significant decrease in circulating tumor cells (CTC) expressing FRα.

Exemplary therapeutic responses to therapy may include:

-   -   Disease Free Survival (DFS): At least a 10% delay in the time to         recurrence of detectable disease;     -   Partial Response (PR): At least a 30% decrease in the sum of         dimensions of target lesions, taking as reference the baseline         sum diameters;     -   Stable Disease (SD): Neither sufficient shrinkage to qualify for         partial response, nor sufficient increase to qualify for         progressive disease, taking as reference the smallest sum         diameters while on study; or     -   Complete Response (CR): Disappearance of all non-target lesions         and normalization of tumor marker level. All lymph nodes must be         non-pathological in size (<10 mm short axis).     -   Non-CR/Non-PD refers to a response presenting a persistence of         one or more non-target lesion(s) and/or maintenance of tumor         marker level above the normal limits.

Progressive Disease (PD) refers to a response presenting at least a 20% increase in the sum of dimensions of target lesions, taking as reference the smallest sum on study (this includes the baseline sum if that is the smallest on study). In addition to the relative increase of 20%, the sum must also demonstrate an absolute increase of 5 mm. The appearance of one or more new lesions is also considered progression.

In some embodiments, an effective amount of the compositions provided herein produce at least one therapeutic effect selected from the group consisting of reduction in size of a FRα-expressing tumor, reduction in metastasis, complete remission, partial remission, stable disease, increase in overall response rate, a pathologic complete response or a delay in tumor recurrence. In other embodiments, the improvement of clinical benefit rate is about 10%-20%, 30%, 40%, 50%, 60%, 70%, 80% or more.

Combination Treatments

The present methods can be combined with other means of cancer treatment including, but not limited to surgery, radiation, targeted therapy, chemotherapy, growth factor inhibitors, anti-angiogenesis factors or a combination of one or more thereof. For example, a patient can undergo surgery, chemotherapy or radiation treatments according to the accepted standard of care for the cancer type prior to or subsequent to administration of the E39 and/or E39′ peptide vaccines. In one embodiment, a patient can undergo treatment with one or more cancer therapies prior to administration of the E39 and/or E39′ peptides at least 12 hours, one day, a week, a month, three, four, five or six months prior to administration of the E39 and/or E39′ peptides. In another embodiment, during the course of administration of the E39 and/or E39′ peptide vaccines, a patient is treated concurrently with one or more additional cancer therapies.

In another embodiment, the patient is receives one or more additional cancer therapies subsequent to administration of the E39 and/or E39′ peptide vaccines. For example, vaccination against FRα-specific antigens may sensitize the FRα-expressing tumor against subsequent chemotherapeutic treatment. Without being bound by any one theory, it is possible that chemotherapy-induced systemic effects (e.g., enhanced cross-presentation of tumor antigens, depletion of suppressor cells, activation of DCs) may further promote the antitumor activity of FRα-specific CTLs.

In other embodiments, the additional cancer therapy is an anti-angiogenisis targeted therapy such as Bevacizumab (Avastin®), Aflibercept (VEGF Trap), Cediranib (Recentin™), Nintedanib (BIBF 1120), Pazopanib, Sorafenib (Nexavar®), Sunitinib (Sutent®), and Cabozantinib (XL-184); Ribose Polymerase (PARP) inhibitors, such as Olaparib (AZD2281), Iniparib (BSI-201), MK04827, ABT-888 and BMN-673; Phosphatidylinositol-3-kinase (PI3K)/Protein Kinase B (AKT)/mTOR pathway inhibitors, such as XL147, PX-866, Everolimus (Afinitor®), Temsirolimus (Torisel®) and Perifosine, MK-2206; SRC inhibitors such as Dasatinib (Sprycel®), and Saracatinib (AZD0530); EGFR Inhibitors such as cetuximab (Erbitux®), trastuzumab (Herceptin®), pertuzumab, erlotinib (Tarceva®), MM-121, and vandetanib; EGFRα inhibitors such as Farletuzumab (MORAb-003), EC145 (conjugate of folic acid and desacetylvinblastine); IGF inhibitors such as AMG 479 and dalotuzumab; p53 inhibitors such as MK-1775; and cytotoxic agents such as cyclophosphamide, carboplatin, pegylated liposomal doxorubisin (PLD), gemcitabine, paclitaxel, topotecan.

In some embodiments, the methods further include administration of a therapeutically effective amount of a platinum-containing compound and/or a taxane to the subject. Exemplary platinum-containing compounds include, but are not limited to, cisplatin and carboplatin. The platinum-containing compound may be administered to the subject about once every week, about once every two weeks, about once every three weeks, or about once every four weeks.

Examples of taxanes include, but are not limited to, paclitaxel, docetaxel, and semi-synthetic, synthetic, and/or modified versions and formulations thereof, including but not limited to nab-paclitaxel (Abraxane®), cabazitaxel (Jevtana®), DJ-927 (Tesetaxel®), paclitaxel poliglumex (Opaxoi®), XRP9881 (Larotaxel®), EndoTAG+pacitaxel (EndoTAG®-1), polymeric-micellar paclitaxel (Genexol-PM®), DHA-paclitaxel (Taxoprexin®), BMS-184476. The taxane may be administered to the subject once every week, about once every two weeks, about once every three weeks, or about once every four weeks. In embodiments in which both a platinum-containing compound and a taxane are administered to the subject prior to or as part of the treatment regimen, the platinum-containing compound may be administered before, after or simultaneously with the taxane.

In some embodiments, the subject will have received surgical resection of the FRα-expressing tumor, first-line platinum-based therapy, first-line taxane-based therapy or a combination thereof prior to treatment with the E39 and/or E39′ peptide vaccines.

In additional embodiments, the subject will have received farletzumab (MORab-003; Morphotek Inc., Exton, Pa.

Kits and Articles of Manufacture

Further provided are kits containing the peptide vaccine compositions described herein and instructions for use. Kits typically include a packaged combination of reagents in predetermined amounts with instructions and a label indicating the intended use of the contents of the kit. The term label or instruction includes any writing, or recorded material supplied on or with the kit, or which otherwise accompanies the kit at any time during its manufacture, transport, sale or use. It can be in the form prescribed by a governmental agency regulating the manufacture, use or sale of pharmaceuticals or biological products, which notice reflects approval by the agency of the manufacture, use or sale for administration to a human or for veterinary use. The label or instruction can also encompass advertising leaflets and brochures, packaging materials, and audio or video instructions.

For example, in some embodiments, the kit contains the peptide vaccines in a suitable container and instructions for administering the peptide vaccines. In some embodiments, the peptide vaccines are provided in a suitable container as a dosage unit for administration. Suitable containers include, for example, bottles, vials, syringes, and test tubes. The containers may be formed from a variety of materials such as glass or plastic.

In other embodiments, the peptide vaccines are provided in lyophilized form, and the kit may optionally contain a sterile and physiologically acceptable reconstitution medium such as water, saline, buffered saline, and the like. It may further include other materials desirable from a commercial and user standpoint, including other buffers, diluents, filters, needles, syringes, and package inserts with instructions for use, for example, comprising administration schedules, to allow a practitioner (e.g., a physician, nurse, or patient) to administer the composition contained therein.

INCORPORATION BY REFERENCE

All documents and references, including patent documents and websites, described herein are individually incorporated by reference to into this document to the same extent as if there were written in this document in full or in part.

The following examples are merely illustrative and should not be construed as limiting the scope of this disclosure in any way as many variations and equivalents will become apparent to those skilled in the art upon reading the present disclosure.

Example 1 Response to E39 in Patients with Endometrial or Ovarian Cancer

The purpose of this study was to test whether a peptide-based vaccine consisting of the E39 peptide mixed with the FDA-approved immunoadjuvant granulocyte macrophage colony-stimulating factor (GM-CSF) is safe and effective at inducing an in vivo peptide-specific immune response.

Methods Patient Characteristics and Clinical Protocols

Eligible patients were identified with endometrial, ovarian, fallopian tube or peritoneal cancer and were disease-free after standard of care therapies. Patients were surgically or naturally post-menopausal. Exclusion criteria included patients currently receiving immunosuppressive therapy to include chemotherapy, steroids or methotrexate, poor health (ECOG <2), evidence of end-organ dysfunction, pregnancy, breast feeding, history of autoimmune disease, and involvement in other experimental protocols (except with permission of the principal investigator of the other study). Exclusion criteria included patients currently receiving immunosuppressive therapy to include chemotherapy, steroids or methotrexate, poor health (ECOG <2), evidence of end-organ dysfunction, pregnancy, breast feeding, history of autoimmune disease, and involvement in other experimental protocols.

Once enrolled, HLA status was evaluated to permit group assignment. E39 is a HLA-A2-restricted peptide (HLA-A2 is present in approximately 40-50% of the general population). HLA-A2 positive patients were thus inoculated with E39+GM-CSF, while HLA-A2 negative patients and those HLA-A2 positive individuals who declined vaccination were followed prospectively as matched controls for disease recurrence and progression. The clinical endpoints were long-term FBP immunity, time to recurrence from date of enrollment, and 2-year disease-free survival (DFS) rate. This planned interim analysis was performed 12 months after completion of trial enrollment.

Fifty-one (51) patients were enrolled in the study with twenty-nine HLA-A2+ patients in the vaccination group (VG), and twenty-two HLA-A2− patients as a control group (CG). The There were no significant differences in age, grade, stage, or histology between groups (all p≥0.1). Demographic, safety, immunologic, and clinical recurrence (CR) data were collected. Disease free survival (DFS) was compared by Kaplan-Meir and logrank tests. Continuous variables were compared with analysis of variance and proportions with Fisher's exact test.

Vaccine and Vaccination Series

The E39 peptide (FBP 191-199, EIWTHSYKV) was produced commercially by an FDA-compliant production facility for patient use. The peptide was purified to >95% before use. Sterility, endotoxin (limulus amebocyte lysate test), and general safety testing was performed. In addition, the manufacturer performed purity/stability testing periodically. Single dose vials were tested for bacterial and fungal contaminants prior to use. The single dose vials were stored in the pharmacy at each institution. The bulk peptide was reconstituted to the following preparations: 100 mcg/0.5 mL, 500 mcg/0.5 mL, and 1000 mcg/0.5 mL. Each of these was mixed with 250 mcg/1.0 mL GM-CSF. This dose (250 mcg) of GM-CSF has been previously determined to be a safe and effective dose, based on our prior work with NeuVax⁶.

The combination of peptide and adjuvant had a volume of 1.5 mL, which was administered intradermally in 0.75 mL inoculums at two different sites within 5 cm of each other. The primary vaccination series (PVS) consisted of six total vaccinations, one given every 21-28 days, administered in the same lymph node draining area.

Dosing

The phase I portion of this trial consisted of dose escalation to determine a safe and effective dose of the E39 peptide. The dose escalation scheme consisted of dosing cohorts of three patients receiving one the following doses: 100, 500, and 1,000 mcg of peptide, in addition to 250 mcg of GM-CSF. Prior to the fourth inoculation, each patient was assessed for liver, renal, and hematopoietic dysfunction. If organ function was stable and no dose limiting toxicity was observed, then the patient continued the series. After the third patient in a given dose group completed the third inoculation and organ function remained stable, the next dose group was initiated.

The optimal dose was initially defined immunologically, but was redefined when the 1000 mcg dosing cohort showed clinical benefit in initial survival data. This cohort was then expanded and became known as the optimal dose group (OPT). The phase IIa portion of this trial then analyzed the expanded OPT versus all other patients.

Toxicity

Standard local and systemic toxicities were collected and graded per the National Cancer Institute Common Terminology Criteria for Adverse Events, v4.03 toxicity scale. For the vaccine series (one vaccine/month for six months), patients were monitored closely for one hour after vaccine inoculation with questioning, serial exams and vital signs every 15 minutes to observe for a hypersensitivity reaction. Systemic toxicity and inoculation site local reactions were also determined after 48-72 hours.

In Vivo Immune Monitoring

Patients were assessed for evidence of in vivo immunologic response by evaluation of delayed-type hypersensitivity (DTH) reaction, which was measured pre-vaccination and again post-PVS. A DTH response was assessed with 100 mcg of E39 (without GM-CSF) as well as a parallel control (equivalent volume of sterile saline) injected intradermally at a site on the back or anterior thigh on the opposite side from the vaccination site. The response was measured using the sensitive ballpoint-pen method in 2 dimensions at 48-72 hours post injection¹⁵. The orthogonal mean was determined for each DTH; its correlation to immunologic response has been previously validated and used in our previous work¹⁶. These values were compared between pre-PVS and post-PVS.

Clinical Recurrences of Disease

Both the vaccinated patients and the observational control patients were monitored for evidence of clinical recurrence through the standard of care follow-up with their primary medical and/or surgical oncologist. This consisted of evaluations every three-months for the initial two years, then every six-months for an additional three years with clinical exam, laboratory tests and radiographic surveillance as indicated. Patients' clinical records were assessed for evidence of clinical recurrence. Disease free survival was measured from the date of enrollment. All patients were followed for clinical recurrence for up to two years at standard of care visits.

Statistical Analysis

A pre-specified, intention-to-treat analysis was performed at 12 months after the last patient was enrolled. Clinicopathologic data were compared between groups. Median and range were used to summarize continuous data and the groups were compared using a Mann-Whitney U test. Chi squared or Fischer exact test were used to compare categorical variables between groups. DTH data was presented as orthogonal means±standard errors and compared using a Student's t test. Time to recurrence was measured from the date of enrollment. DFS was analyzed using the Kaplan-Meier method, and groups were compared using a simple log-rank test. Statistical analyses were performed using SPSS version 22 (IBM Corp. Released 2013. IBM SPSS Statistics for Windows, Version 22.0. Armonk, N.Y.: IBM Corp.). Statistical significance was considered achieved if p<0.05. Pre-specified subset analyses were also performed by dose cohort.

Results Patients

Fifty-one (51) patients were enrolled in the study, 29 in the vaccinated group (VG) and 22 patients in the control group (CG). Within the VG, 15 patients received the optimal dose (1000 mcg) of the peptide, referred to as the OPT group, while 14 patients received less, referred to as the non-optimal dose (nOPT) group (FIG. 1). There were no significant clinicopathologic differences between groups (Table 1A and 1B).

TABLE 1A Demographics Vaccinated Controls Characteristic (n = 29) (n = 22) p-Value Median age (yrs) 60 61 0.790 (Interquartile 52-67 53-63 Range 1-3) Histology-n (%) 0.373 Endometrial  6 (20.7)  3 (13.6) Fallopian  1 (3.4)  0 (0.0) Ovarian 20 (69.0) 18 (86.4) Peritoneal  2 (6.9)  0 (0.0) Grade-n (%) 1 (Well Differentiated)  2 (6.9)  2 (9.1) 0.851 2 (Moderately  4 (13.8)  2 (9.1) Differentiated) 3 (Poorly 23 (79.3) 18 (81.8) Differentiated) Stage-n (%) 0.235 Tis  1 (3.4)  0 (0.0) 1  6 (20.7)  3 (13.6) 2  2 (6.9)  4 (18.2) 3 14 (48.3) 12 (54.5) 4  5 (17.2)  3 (13.6) Tx  1 (3.4)  0 (0.0) Node-n (%) 0.764 Positive  9 (31.0)  5 (22.7) Negative 20 (69.0) 17 (77.3) FIGO Stage-n (%) 0.591 I  4 (13.8)  3 (13.6) II  2 (6.9)  3 (13.6) III 18 (62.1) 11 (50.0) IV  5 (17.2)  5 (22.7)

TABLE 1B Demographics-Dosing Cohorts <1000 mcg 1000 mcg (nOPT) (OPT) Controls Characteristic (n = 14) (n = 15) (n = 22) p-Value Median age (yrs) 61 57 61 0.827 (Interquartile 56-66 49-67 53-63 Range 1-3) Histology-n (%) 0.531 Endometrial  3 (21.4)  3 (20.0)  3 (13.6) Fallopian  1 (7.1)  0 (0.0)  0 (0.0) Ovarian  9 (64.3) 11 (73.3) 18 (86.4) Peritoneal  1 (7.1)  1 (6.7)  0 (0.0) Grade-n (%) 0.508 1 (Well  0 (0.0)  2 (13.3)  2 (9.1) Differentiated) 2 (Moderately  3 (21.4)  1 (6.7)  2 (9.1) Differentiated) 3 (Poorly 11 (78.6) 12 (80.0) 18 (81.8) Differentiated) T Stage-n (%) 0.263 Tis  0 (0.0)  1 (6.7)  0 (0.0) 1  3 (21.4)  3 (20.0)  3 (13.6) 2  0 (0.0)  2 (13.3)  4 (18.2) 3  9 (64.3)  5 (33.3) 12 (54.5) 4  2 (14.3)  3 (20.0)  3 (13.6) Tx  0 (0.0)  1 (6.7)  0 (0.0) Node-n (%) 0.450 Positive  6 (42.9)  3 (20.0)  5 (22.7) Negative  8 (57.1) 12 (80.0) 17 (77.3) FIGO Stage-n (%) 0.297 I  1 (7.1)  3 (20.0)  3 (13.6) II  0 (0.0)  2 (13.3)  3 (13.6) III 11 (78.6)  7 (46.7) 11 (50.0) IV  2 (14.3)  3 (20.0)  5 (22.7)

Toxicity

Local and systemic toxicities were mild at the completion of the PVS (FIG. 2), with no grade 4 or 5 toxicities, and only 1 patient experiencing grade 3 toxicity. The maximum local toxicities were milder for the OPT patients than nOPT patients (p=0.04) with OPT and nOPT groups experiencing grade 1 (100% vs 78.6%) or grade 2 (0% vs 21.4%). The most common local toxicities were induration at the injection site, erythema, and pruritus. The maximum systemic toxicities for the OPT group as compared to the nOPT group were grade 0 (0% vs 7.7%), grade 1 (61.5% vs 46.2%), grade 2 (38.5% vs 46.2%) and grade 3 (0% vs 7.7%), (p>0.05 for each). The most common systemic toxicities were myalgias, headache, and fatigue (FIG. 1).

Immunologic Response

The DTH increased from pre-vaccination to post-vaccination in the VG, approaching statistical significance (5.7±1.5 mm vs 10.3±2.8 mm, p=0.06). As shown in FIG. 3, when analyzed by dose, OPT patients had a statistically significant increase in DTH from pre-vaccination to post-vaccination (3.8±2.0 mm vs 9.5±3.5 mm, p=0.03), while nOPT patients experienced a smaller increase from pre- to post-vaccination, which was not statistically significant (7.8±2.1 mm vs 11.3±4.8 mm, p=0.28).

Disease-Free Survival

An interim analysis was performed 12 months after completion of trial enrollment. The median follow up was 12.0 months (interquartile range 7.6-19.2 months). The overall recurrence rate for the VG versus the CG was 41.4% versus 54.6%, respectively (p=0.35). The 2-year estimated DFS for VG was 43% (95% confidence interval (CI): 18-66%) versus 33.6% (95% CI: 13-56%) in CG (p=0.36). The vaccinated patients experienced a 31% reduction in relative recurrence risk regardless of dose (FIG. 4).

Subgroup analyses were performed based on dosing cohort. The recurrence rate was significantly lower in the OPT group compared to the CG patients (13.3% vs 54.6%, p=0.02). There was no statistically significant difference in recurrence between the nOPT group versus the CG patients. When comparing the dosing cohorts, patients receiving the optimal dose of E39 experienced an 83% reduction in relative risk of recurrence compared to nOPT patients (HR 0.17, 95% CI: 0.04-0.77, p=0.003). The 2-year estimated DFS indicated a significant survival advantage for the OPT group at 85.7% (95% CI: 54-96%) compared to the controls at 33.6% (95% CI: 13-56%, p=0.02). Surprisingly, there was no difference of statistical significance in the estimated 2-year DFS between the nOPT and CG. A survival benefit was appreciated with analysis of the estimated 2-year DFS comparing OPT versus the nOPT patients, 85.7% versus 20.8% (p=0.009). FIG. 5 displays the survival analysis of a 3-way comparison between OPT, nOPT and CG.

Discussion

This trial using E39+GM-CSF to prevent recurrence in disease-free endometrial and ovarian cancer patients at high risk of recurrence demonstrated that the vaccine is well tolerated, immunogenic. No grade 4 or 5 toxicities were observed. The only grade 3 response was observed in the nOPT cohort, indicating the increase in peptide dose did not cause any additional toxicity. Given the severity of side effects associated with standard of care chemotherapy for endometrial and ovarian cancer patients, a low toxicity profile is key for any additional therapy given in the adjuvant setting. The E39 vaccine, even given at higher peptide dose, fulfills this requirement.

The data further demonstrate that the E39 vaccine was able to effectively induce a robust immune response. Patients did have a limited DTH response to E39 prior to vaccination, which indicates previous exposure to FBP on the surface of their tumors. The vaccine, however, increased this DTH response in all vaccinated patients and increased the response to an even greater extent in patients receiving the optimal (1.0 mg) dose of the vaccine, reaching statistical significance. The OPT group had a greater increase in DTH from pre- to post-vaccination and the best clinical outcomes.

In the subgroup analysis, optimally dosed patients had an even more pronounced benefit, reaching statistical significance when compared to both the CG and nOPT group. Indeed, it was completely unexpected that patients receiving less than the 1.0 mg OPT dose did not demonstrate a statistically significant benefit when compared to the CG. The OPT group was approximately five times less likely to experience a recurrence when compared to the CG. Clearly, the higher dose of peptide induced a more meaningful response in this group of patients. In addition, the efficacy results indicate that the 1000 mcg dose cohort had increased immune responses and longer disease-free survival rates.

Example 2 Effect of Booster Inoculation on Immune Response

Booster inoculations of peptide vaccines may improve disease-free survival (DFS) (e.g., U.S. Pat. No. 8,222,214), but repeated boosting can theoretically lead to overstimulation and loss of vaccine-induced T cells. Therefore, to assess the use of the attenuated E39′ peptide as a booster, E39-vaccinated patients described in Example 1 were randomized to receive either E39 or E39′ as a booster to determine the effect on long-term E39-specific immunity. Patients in the VG received six intradermal E39 injections as described in Example 1 as a primary vaccination schedule (PVS). At six months (B1) and at twelve months (B2) after completion of the PVS, patients received either 500 mcg of E39′ and 250 mcg GM-CSF or 500 mcg E39 and 250 mcg of GM-CSF as a booster.

Local reactions (LR) were recorded 48-72 hours after each booster. Immune response was determined by measurement of E39 specific CTL levels using a Dextramer reagents in accordance with the manufacturer's instructions (Immudex Limited, Copenhagen, Denmark) as previously described (e.g., Tario et al. Cytometry B Clin. Cytom. 2015; 88B:6-20; Baba J. Transl Med. 2010; 8:84), at R0 (baseline pre-vaccination), RC1 (1 month after completion of PVS), RC6 (6 months after completion of PVS and before booster), RC7 (1 month after booster) and RC12 (6 months after booster and 12 months after completion of PVS). Demographic, safety, immunological, and DFS data were collected and evaluated.

Seventeen patients were included in this portion of the study. For B1, nine patients received E39′ and eight patients received E39; and B2 included seven patients in each group (E39 or E39′). There were no significant clinicopathological differences between groups.

The data from a patient receiving E39′ as a booster is exemplified in Table 2.

TABLE 2 Timepoint R0 RC1 RC6 RC7 RC12 E39 CTL Level 0.018 0.018 0.078 .275 .275

An increase in E39-specific CTLs was not seen immediately after completion of the PVS. However, there was a substantial increase by 6 months after completion of the PVS (>4 fold). Even more significantly, the level of CTLS increased even further after boosting with the E39′ peptide (>15 fold over baseline) which persisted for at least 6 months.

The average LR for all patients in the E39′ vs. E39 groups were 79.7±14.0 mm vs. 82.1±8.3 mm, respectively for B1 (p=0.45) and 74.1±11.5 vs. 78±11.2 mm, respectively for B2 (p=0.41). Clinically, the recurrence rate was 22.2% in the E39′ boost group vs. 25% for E39. The estimated 2-year DFS for B1 pts for E39′, E39 and the control group (CG) were 66.7%, 58.3%, and 36.0%, respectively; and for B2 pts were 66.7%, 66.7%, and 36.0%, respectively. Comparing just the boosted groups, for B1 the hazard ratio (HR) for E39′ vs. E39=0.71 (95% CI: 0.1-5.13), and for B2 the HR for E39′ vs. E39=0.82 (95% CI: 0.05-13.24).

The data indicate that the use of an attenuated peptide (E39′) booster was safe and as immunogenic as the wildtype peptide (E39) in this randomized trial of optimal boosting strategies. More importantly, the data further show that there appears to be a potential clinical advantage to the use of attenuated E39′ peptide booster.

Example 3

In this study, breast or ovarian cancer patients with no evidence of disease (NED) after completion of primary first-line therapies (i.e., surgery, chemotherapy, immunotherapy and radiation therapy as appropriate per standard of care for patient's specific cancer) were enrolled in a phase Ib trial. The patients were post-menopausal or rendered surgically infertile and good performance status (ECOG <2).

HLA-2+ patients were stratified based on cancer diagnosis (breast versus ovarian), then randomized by computer tables to one of three arms for the PVS. Patients in arm EE received 6 intradermal inoculations of E39; patients in arm EE′ received 3 intradermal inoculations of E39 followed by 3 intradermal inoculations of E39′; and patients in arm E′E received 3 intradermal inoculations of E39′ followed by 3 intradermal inoculations of E39. Primary vaccination series (PVS) included 6 inoculations, one every 3-4 weeks containing 250 mcg GM-CSF+500 mcg of peptide suspended in bacteriostatic saline in the first 5 patients per arm and 1000 mcg of peptide in second 5 patients.

Patients were monitored closely for one hour after each inoculation with questioning, serial exams, and vital signs every 15 minutes. Patients were examined again 48-72 hours after each inoculation for any local or systemic toxicity and to examine and measure the local reaction at the vaccination sites. The graded toxicity scale (NCI Common Terminology Criteria for Adverse Events, v4.03) was utilized to assess local and systemic toxicity.

To assess the in vivo immune response, local reaction (LR) was measured 48 hours after each inoculation (R1-6), and delayed type hypersensitivity (DTH) was measured pre-vaccine (R0), and then 1 and 6-months (±2 wks) after the PVS was completed (RC1, RC6).

Ex vivo immune response was measured via dextramer assay for E39-specific CD8+ T-cells at R0, RC1, and RC6. Specifically, ex vivo immunologic recognition of E39 and E39′ were assessed by clonal expansion using a dextramer assay and the in vivo response was assessed by Delayed Type Hypersensitivity (DTH). The 6 month post-PVS immunologic data was then used to assess each patient for significant residual immunity (SRI), defined as ≥2-fold increase in E39-specific CD8+ T-cells from the pre-vaccination level.

Patients were then sorted into two groups: those with SRI and those without. Patients within each group were then randomized to receive one booster of either E39′ or E39 to result in four groups: 1) patients with SRI receiving E39 as a booster; 2) patients with SRI receiving E39′ as a booster; 3) patients without SRI receiving E39 as a booster; and 4) patients without SRI receiving E39′ as a booster. Immunologic data is again collected at 1 month (±2 wks) and 6 months (±2 wks) post-booster and analyzed. Statistical analyses included descriptive statistics, t-test, Chi-squared, Fisher's exact test and ANOVA as appropriate.

Thirty-nine patients were enrolled (EE n=12,EE′ n=14,E′E n=13), with 30 patients completing the PVS. There were no clinicopathologic differences between groups (Tables 3). No grade ≥3 toxicities or significant differences were seen between groups (FIG. 6). Ex vivo immune responses by dextramer assays revealed no significant difference between groups (p<0.05), nor within groups (EE p=0.65, EE′ p=0.70, E′E p=0.15, FIG. 7). In vivo analysis of local reaction (LR) revealed statistically significant trends comparing Vax 1 vs. Vax 6. The trend of the LRs for both EE and E′E peaked at R4, while EE′ continued to increase in size throughout the PVS (EE p=0.03, EE′ p=0.02, E′E p=0.07, FIG. 8. A statistically significant increase in DTH was also observed within arm EE′ when comparing R0 vs. RC6. The trend revealed a continued increase over R0-RC1-RC6 (EE p=0.11, EE′ p=0.005, E′E p=*, FIG. 9).

In this Phase Ib trial comparing three vaccination strategies in ovarian and breast cancer, the analyses revealed E39, given sequentially with or without E39′, is immunogenic. Significantly, the addition of E39′ maintained the levels of E39-specific CTLs, which decreased when only E39 was used in the PVS. The EE′ vaccination sequence produced the most prominent LR and DTH responses, indicating that the in vivo response is enhanced by the use of the attenuated E39′ after E39.

Thus, the data surprisingly demonstrated that patients in arm EE′ demonstrated the most sustained immune response indicating that a PVS regimen in which E39 followed by E39′ is more efficacious than administration of either peptide alone, or the administration of E39′ followed by E39.

TABLE 3 Demographics-Breast Cancer Patients/Ovarian Cancer Patients Arm: EE Arm: EE′ Arm:E′E Characteristic n = 12 n = 12 N = 11 p-Value Median age (yrs) 54.50 60.00 64.00 0.424 (range) 47.5-64.25 57.5-66 49-74 T Stage-n (%) 0.385 ≤T2 10 (83.3)  6 (50.0)  5 (45.5) ≥T2  2 (16.7)  6 (50.0)  6 (54.4) Grade-n (%) 0.919 Well/Moderately  6 (50.0)  6 (50.0)  5 (45.5) Differentiated Poorly Differentiated  5 (41.7)  5 (41.7)  5 (45.5) Unknown  1 (8.3)  1 (8.3)  1 (9.1) AJCC Stage-n (%) 0.302 0  1 (8.3)  0 (0.0)  1 (9.1) I  5 (41.7)  4 (33.3)  2 (18.2) II  2 (16.7)  4 (33.3)  4 (36.4) III  4 (33.3)  4 (33.3)  2 (18.2) IV  0 (0.0)  0 (0.0)  2 (18.2) Nodal Status-n (%) 0.211 Positive  6 (50.0)  4 (33.3)  6 (54.4) Negative  6 (50.0)  8 (61.5)  5 (45.5) Histology-n (%) 0.716 Ductal  9 (75.0)  8 (61.5)  9 (81.8) Lobular  0 (0.0)  1 (8.3)  0 (0.0) DCIS  2 (16.7)  1 (8.3)  1 (9.1) Mixed  1 (8.3)  2 (16.7)  1 (9.1) ER/PR Status-n (%) 0.789 Positive  8 (61.5)  8 (61.5)  6 (54.4) Negative  4 (33.3)  4 (33.3)  5 (45.5) HER2 Status-n (%) 0.069 Positive  5 (41.7)  1 (8.3)  1 (9.1) Negative  7 (58.3) 11 (91.7) 10 (90.9) Arm: EE Arm: EE′ Arm: E′E Characteristic n = 0 n = 2 n = 2 p-Value Median age (yrs) N/A 55 49 0.439 (range) N/A 53-57 46-53 Histology-n (%) 0.248 Fallopian  0 (0.0)  1 (50.0)  0 (0.0) Ovarian  0 (0.0)  1 (50.0)  2 (100.0) Grade-n (%) 0.046 Well/Moderately  0 (0.0)  0 (0.0)  0 (0.0) Differentiated Poorly Differentiated  0 (0.0)  0 (0.0)  2 (100.0) Unknown  0 (0.0)  2 (100.0)  0 (0.0) T Stage-n (%) 0.261 1  0 (0.0) 2  0 (0.0)  0 (0.0)  0 (0.0) 3  0 (0.0)  1 (50.0)  2 (100.0) 4  0 (0.0)  0 (0.0)  0 (0.0) Unknown  0 (0.0)  1 (50.0)  0 (0.0) FIGO Stage-n (%) 0.261 I  0 (0.0)  0 (0.0)  0 (0.0) II  0 (0.0)  0 (0.0)  1 (50.0) III  0 (0.0)  1 (50.0)  1 (50.0) IV  0 (0.0)  1 (50.0)  0 (0.0)

EMBODIMENTS

1. A method of inducing an immune response against a tumor expressing folate receptor alpha (FRα) in a subject in need thereof, the method comprising:

-   -   (a) administering a first vaccine comprising a peptide         comprising the amino acid sequence of SEQ ID NO:1 (E39) and an         adjuvant every three to four weeks for a period of about two to         about six months; and     -   (b) subsequently administering a second vaccine comprising a         peptide comprising the amino acid sequence of SEQ ID NO: 2         (E39′) and an adjuvant every three to four weeks for a period of         about two to six months.

2. The method of embodiment 1, wherein the first vaccine is administered every three to four weeks for a period of about three months.

3. The method of embodiment 1, wherein the first vaccine is administered every three to four weeks for a period of about four months.

4. The method of embodiment 1, wherein the first vaccine is administered every three to four weeks for a period of about five months.

5. The method of embodiment 1, wherein the first vaccine is administered every three to four weeks for a period of about six months.

6. The method of any one of embodiments 1 to 5, wherein the second vaccine is administered every three to four weeks for a period of about three months.

7. The method of any one of embodiments 1 to 5, wherein the second vaccine is administered every three to four weeks for a period of about four months.

8. The method of any one of embodiments 1 to 5, wherein the second vaccine is administered every three to four weeks for a period of about five months.

9. The method of any one of embodiments 1 to 5, wherein the second vaccine is administered every three to four weeks for a period of about six months.

10. The method of any one of the preceding embodiments, wherein the first vaccine is administered by injection.

11. The method of any one of the preceding embodiments, wherein the second vaccine is administered by injection.

12. The method of embodiments 10 or 11, wherein the first vaccine is administered by intradermal injection.

13. The method of embodiments 11 or 12, wherein the second vaccine is administered by intradermal injection.

14. The method of any one of the preceding embodiments, wherein the first vaccine is administered as split dosages that are administered substantially concurrently.

15. The method of any one of the preceding embodiments, wherein the second vaccine is administered as split dosages that are administered substantially concurrently.

16. The method of embodiments 14 or 15, wherein the split dosages are administered at one site or at different sites.

17. The method of embodiment 16, wherein the split dosages are administered at least 5 cm apart.

18. The method of any one of the preceding embodiments, wherein the first vaccine comprises a peptide consisting of the amino acid sequence of SEQ ID NO: 1.

19. The method of any one of the preceding embodiments, wherein the second vaccine comprises a peptide consisting of the amino acid sequence of SEQ ID NO: 2.

20. The method of any one of the preceding embodiments, wherein the first vaccine comprises about 0.1 mg to about 2 mg of the peptide.

21. The method of any one of the preceding embodiments, wherein the second vaccine comprises about 0.1 mg to about 2 mg of the peptide.

22. The method of any one of the preceding embodiments, wherein the first vaccine comprises about 0.5 mg to about 1.0 mg of the peptide.

23. The method of any one of the preceding embodiments, wherein the second vaccine comprises about 0.5 mg to about 1.0 mg of the peptide.

24. The method of any one of the preceding embodiments, wherein the adjuvant in the first vaccine is granulocyte macrophage-colony stimulating factor (GM-CSF).

25. The method of any one of the preceding embodiments, wherein the adjuvant in the second vaccine is GM-CSF.

26. The method of embodiments 24 or 25, wherein the first vaccine comprises between about 0.01 to about 0.5 mg GM-CSF.

27. The method of any one of embodiments 24 to 26, wherein the second vaccine comprises between about 0.01 to about 0.5 mg GM-CSF.

28. The method of any one of embodiments 24 to 27, wherein the first vaccine comprises about 0.250 mg GM-CSF.

29. The method of any one of embodiments 24 to 28, wherein the second vaccine comprises about 0.250 mg GM-CSF.

30. The method of any one of the preceding embodiments, further comprising administering to the subject a booster composition after the primary immunization schedule is completed, wherein the booster composition comprises an effective amount of a peptide comprising an amino acid selected from the group consisting of SEQ ID NO: 1 and SEQ ID NO: 2, and an adjuvant.

31. The method of embodiment 30, wherein the peptide comprises the amino acid sequence of SEQ ID NO: 1.

32. The method of embodiment 30, wherein the peptide comprises the amino acid sequence of SEQ ID NO: 2.

33. The method of any one of embodiments 30 to 32, wherein the booster composition comprises about 0.1 mg to about 2 mg of the peptide.

34. The method of any one of embodiments 30 to 33, wherein the booster composition comprises about 0.5 to about 1.0 mg of the peptide.

35. The method of any one of embodiments 30 to 34, wherein the adjuvant in the booster composition is GM-CSF.

36. The method of embodiment 35, wherein the booster composition comprises about 0.01 mg to about 0.5 mg GM-CSF.

37. The method of embodiment 35, wherein the booster composition comprises about 0.250 GM-CSF.

38. The method of any one of embodiments 30 to 37, wherein the booster composition is administered about six months, about twelve months or about one year after completion of the primary immunization schedule.

39. The method of any one of embodiments 30 to 37, wherein the booster composition is administered about six months after the completion of the primary immunization schedule.

40. The method of any one of the preceding embodiments, wherein the FRα-expressing cancer is an epithelial-derived malignancy.

41. The method of any one of the preceding embodiments, wherein the FRα-expressing cancer is ovarian cancer, endometrial cancer, breast cancer, cervical cancer, colorectal cancer, lung cancer, uterine cancer, osteosarcoma, renal cell carcinoma, mesothelioma, CNS sarcoma, ependyoma and pituitary adenoma.

42. The method of embodiment 41, wherein the FRα-expressing cancer is ovarian cancer.

43. The method of embodiment 42, wherein the ovarian cancer is platinum resistant.

44. The method of embodiments 42 or 43, wherein the ovarian cancer is taxane resistant.

45. The method of embodiment 41, wherein the FRα-expressing cancer is endometrial cancer.

46. The method of embodiment 41, wherein the FRα-expressing cancer is breast cancer.

47. The method of any one of the preceding embodiments, wherein the subject is a human.

48. The method of any one of the preceding embodiments, wherein the subject has been previously treated with one or more cancer therapies.

49. The method of embodiment 48, wherein the subject has no evidence of disease (NED).

50. The method of any of the preceding embodiments, wherein the FRα-expressing cancer has an immunohistochemistry (IHC) rating of at least 1+ for FRα protein expression.

51. The method of any one of the preceding embodiments, wherein the subject has a CA125 level above 35 U/ml. 

What is claimed is:
 1. A method of inducing an immune response against a tumor expressing folate receptor alpha (FRα) in a subject in need thereof, the method comprising: (a) administering a first vaccine comprising a peptide comprising the amino acid sequence of SEQ ID NO:1 (E39) and an adjuvant every three to four weeks for a period of about two to about six months; and (b) subsequently administering a second vaccine comprising a peptide comprising the amino acid sequence of SEQ ID NO: 2 (E39′) and an adjuvant every three to four weeks for a period of about two to six months.
 2. The method of claim 1, wherein the first vaccine is administered by injection.
 3. The method of claim 1, wherein the second vaccine is administered by injection.
 4. The method of claim 1, wherein the first vaccine comprises about 0.1 mg to about 2 mg of the peptide.
 5. The method of claim 4, wherein the first vaccine comprises about 0.5 or about 1.0 mg of the peptide.
 6. The method of claim 1, wherein the second vaccine comprises about 0.1 mg to about 2 mg of the peptide.
 7. The method of claim 6, wherein the second vaccine comprises about 0.5 or about 1.0 mg of the peptide.
 8. The method of claim 1, wherein the adjuvant in the first vaccine is granulocyte macrophage-colony stimulating factor (GM-CSF).
 9. The method of claim 1, wherein the adjuvant in the second vaccine is GM-CSF.
 10. The method of claim 8, wherein the first vaccine comprises between about 0.01 to about 0.5 mg GM-CSF.
 11. The method of claim 9, wherein the second vaccine comprises between about 0.01 to about 0.5 mg GM-CSF.
 12. The method of claim 1, further comprising administering to the subject a booster composition after the primary immunization schedule is completed, wherein the booster composition comprises an effective amount of a peptide comprising an amino acid selected from the group consisting of SEQ ID NO: 1 and SEQ ID NO: 2, and an adjuvant.
 13. The method of claim 12, wherein the adjuvant in the booster composition is GM-CSF in an amount between about 0.01 to about 0.5 mg.
 14. The method of claim 12, wherein the booster composition is administered about six months, about twelve months or about one year after completion of the primary immunization schedule.
 15. The method of claim 1, wherein the FRα-expressing cancer is an epithelial-derived malignancy.
 16. The method of claim 15, wherein the FRα-expressing cancer is ovarian cancer, endometrial cancer, breast cancer, cervical cancer, colorectal cancer, lung cancer, uterine cancer, osteosarcoma, renal cell carcinoma, mesothelioma, CNS sarcoma, ependyoma and pituitary adenoma.
 17. A method of inducing and maintaining an immune response to a tumor expressing FRα in a subject, the method comprising, (a) administering a first vaccine comprising between about 0.1 and about 2 mg of a peptide consisting of the amino acid sequence of SEQ ID NO:1 (E39) and an adjuvant every three to four weeks for a period of about two to about six months; (b) subsequently administering a second vaccine comprising between about 0.1 and about 2 mg of a peptide consisting of the amino acid sequence of SEQ ID NO: 2 (E39′) and an adjuvant every three to four weeks for a period of about two to six months; and (c) administering a booster composition comprising between about 0.1 and about 2 mg of a peptide consisting of an amino acid selected from the group consisting of SEQ ID NO: 1 and SEQ ID NO: 2, and an adjuvant about six months after step (b).
 18. The method of claim 17, wherein the first vaccine comprises about 0.5 mg or about 1.0 mg of the peptide.
 19. The method of claim 17, wherein the booster composition comprises about 0.5 or about 1.0 mg of a peptide consisting of the amino acid sequence of SEQ ID NO:
 2. 20. The method of claim 17, wherein the adjuvant in the first vaccine, second vaccine and booster composition is GM-CSF. 